Query 039855
Match_columns 198
No_of_seqs 126 out of 841
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 02:40:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039855.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039855hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03391 FeS_syn_CsdE cystein 100.0 4E-50 8.7E-55 323.0 14.5 134 50-193 3-137 (138)
2 PRK09296 cysteine desufuration 100.0 5.2E-50 1.1E-54 322.4 14.5 131 60-197 5-136 (138)
3 PRK15019 CsdA-binding activato 100.0 1.3E-49 2.8E-54 323.2 15.2 138 50-197 8-146 (147)
4 COG2166 sufE Cysteine desulfur 100.0 2.6E-49 5.6E-54 320.0 13.5 138 49-196 2-140 (144)
5 PF02657 SufE: Fe-S metabolism 100.0 2.8E-48 6.1E-53 307.0 11.7 124 65-195 1-124 (125)
6 PLN02673 quinolinate synthetas 100.0 4.2E-45 9.1E-50 350.6 17.1 169 23-197 40-214 (724)
7 PRK11325 scaffold protein; Pro 94.2 1.4 3E-05 34.8 11.5 77 104-192 35-115 (127)
8 TIGR03419 NifU_clost FeS clust 94.1 1.1 2.5E-05 35.0 10.9 102 81-194 4-112 (121)
9 TIGR01999 iscU FeS cluster ass 93.9 1.9 4.2E-05 33.7 11.7 77 105-193 34-114 (124)
10 PF01592 NifU_N: NifU-like N t 93.1 0.78 1.7E-05 35.9 8.3 70 91-161 18-92 (126)
11 cd06664 IscU_like Iron-sulfur 91.5 3.9 8.5E-05 31.4 10.4 83 80-163 4-91 (123)
12 TIGR02000 NifU_proper Fe-S clu 88.5 6 0.00013 35.7 10.5 95 80-184 6-107 (290)
13 TIGR01994 SUF_scaf_2 SUF syste 82.8 8.5 0.00018 30.6 7.7 78 81-159 8-90 (137)
14 PF03900 Porphobil_deamC: Porp 65.5 7.6 0.00016 27.6 3.0 25 102-126 14-38 (74)
15 cd07477 Peptidases_S8_Subtilis 52.2 13 0.00028 30.5 2.6 34 121-154 190-224 (229)
16 cd07487 Peptidases_S8_1 Peptid 52.1 14 0.00031 30.9 2.9 35 120-154 222-257 (264)
17 cd04077 Peptidases_S8_PCSK9_Pr 50.7 13 0.00027 31.4 2.4 35 120-154 212-247 (255)
18 cd07483 Peptidases_S8_Subtilis 48.4 17 0.00037 31.8 2.9 33 122-154 251-284 (291)
19 cd07498 Peptidases_S8_15 Pepti 47.3 15 0.00033 30.5 2.3 34 121-154 203-237 (242)
20 cd07072 NR_LBD_DHR38_like Liga 46.0 6.2 0.00013 34.4 -0.2 78 46-126 25-107 (239)
21 cd07482 Peptidases_S8_Lantibio 45.9 24 0.00052 30.1 3.4 34 121-154 254-289 (294)
22 cd04848 Peptidases_S8_Autotran 44.6 21 0.00045 29.6 2.7 35 120-154 225-260 (267)
23 cd07492 Peptidases_S8_8 Peptid 44.3 32 0.0007 28.3 3.8 35 120-154 180-215 (222)
24 cd07485 Peptidases_S8_Fervidol 44.1 21 0.00045 30.7 2.7 34 121-154 233-268 (273)
25 cd04059 Peptidases_S8_Protein_ 42.7 12 0.00026 32.2 1.1 33 122-154 257-290 (297)
26 cd07473 Peptidases_S8_Subtilis 42.5 27 0.00058 29.3 3.1 34 121-154 218-252 (259)
27 cd04847 Peptidases_S8_Subtilis 39.5 21 0.00045 30.9 2.1 36 120-155 249-285 (291)
28 cd05562 Peptidases_S53_like Pe 39.0 31 0.00068 30.2 3.1 36 119-154 208-244 (275)
29 cd07494 Peptidases_S8_10 Pepti 37.2 39 0.00085 30.0 3.4 34 121-154 242-276 (298)
30 cd07490 Peptidases_S8_6 Peptid 34.5 32 0.00069 28.8 2.3 33 122-154 214-247 (254)
31 cd07474 Peptidases_S8_subtilis 34.3 36 0.00078 29.1 2.7 34 122-155 230-264 (295)
32 COG0822 IscU NifU homolog invo 33.0 2.7E+02 0.0059 22.7 8.9 79 80-159 9-93 (150)
33 PF12637 TSCPD: TSCPD domain; 31.6 1.7E+02 0.0036 21.9 5.6 49 105-154 6-62 (95)
34 cd04852 Peptidases_S8_3 Peptid 31.2 38 0.00082 29.6 2.3 31 124-154 269-300 (307)
35 cd07496 Peptidases_S8_13 Pepti 30.1 40 0.00087 29.0 2.3 33 122-154 247-280 (285)
36 cd00306 Peptidases_S8_S53 Pept 29.9 43 0.00093 26.6 2.3 34 122-155 203-237 (241)
37 cd07481 Peptidases_S8_Bacillop 29.1 42 0.00091 28.6 2.2 33 122-154 222-257 (264)
38 cd07489 Peptidases_S8_5 Peptid 27.4 70 0.0015 27.9 3.4 34 122-155 225-260 (312)
39 PRK14484 phosphotransferase ma 26.7 91 0.002 24.8 3.6 33 119-154 83-115 (124)
40 TIGR00212 hemC porphobilinogen 25.1 2.1E+02 0.0045 26.1 6.0 53 63-127 205-257 (292)
41 cd05561 Peptidases_S8_4 Peptid 25.0 54 0.0012 27.8 2.2 34 121-155 185-219 (239)
42 cd07493 Peptidases_S8_9 Peptid 25.0 67 0.0015 27.2 2.7 33 122-154 221-254 (261)
43 PTZ00262 subtilisin-like prote 23.7 70 0.0015 32.3 2.9 34 122-155 551-585 (639)
44 COG0181 HemC Porphobilinogen d 22.9 92 0.002 28.7 3.3 26 101-126 235-260 (307)
45 PF06126 Herpes_LAMP2: Herpesv 21.7 53 0.0011 31.1 1.5 33 84-116 389-432 (497)
46 cd07484 Peptidases_S8_Thermita 21.2 89 0.0019 26.3 2.7 33 121-154 217-250 (260)
47 cd07479 Peptidases_S8_SKI-1_li 20.8 90 0.0019 26.8 2.7 35 120-154 205-244 (255)
48 PF10109 FluMu_gp41: Mu-like p 20.1 97 0.0021 21.5 2.3 26 138-163 48-73 (82)
No 1
>TIGR03391 FeS_syn_CsdE cysteine desulfurase, sulfur acceptor subunit CsdE. Members of this protein family are CsdE, formerly called YgdK. This protein, found as a paralog to SufE in Escherichia coli, Yersinia pestis, Photorhabdus luminescens, and related species, works together and physically interacts with CsdA (a paralog of SufS). CsdA has cysteine desulfurase activity that is enhanced by this protein (CsdE), in which Cys-61 (numbered as in E. coli) is a sulfur acceptor site. This gene pair, although involved in FeS cluster biosynthesis, is not found next to other such genes as are its paralogs from the Suf or Isc systems.
Probab=100.00 E-value=4e-50 Score=323.00 Aligned_cols=134 Identities=28% Similarity=0.456 Sum_probs=126.0
Q ss_pred CCCCCcCCchHHHHHHHHHhcCCCChHHHHHHHHHHhcCCCCCCccccccccccCCcccceeeEEEEccCCeEEEEEeCC
Q 039855 50 RNPEPIATTSTKLQLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQAKKVAGCATQVWLEVVMDERGRMRFRADSD 129 (198)
Q Consensus 50 ~~p~~~~~~~~~l~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aDSD 129 (198)
++|++ ...++++|+++|+.++||++||+|||++||+||+|||++|+++|+|+||||+|||.++..+||+++|+||||
T Consensus 3 ~~~m~---~~~~~~~i~~~f~~~~dwe~ry~~lI~lgk~Lp~lpe~~r~~~~~V~GCqS~VWl~~~~~~dg~~~f~~dSD 79 (138)
T TIGR03391 3 PHPFG---TEITAADLIATFAACRQWEDRYRQLILLAKQLPALPEALKTQATELTGCENRVWLGHQVLPDGTLHFYGDSE 79 (138)
T ss_pred CCCCC---cchHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCCChHHcChhhccCCcccceeeeeeecCCCEEEEEecCc
Confidence 35655 457999999999999999999999999999999999999999999999999999988755689999999999
Q ss_pred hhhHHHHHHHHHHHhcCCChHHHhcCCh-hHHHhcCccccccccCCCCCCcchHHHHHHHHHHHH
Q 039855 130 SEISKGFCSCLIMVLDGAEPEEVLGFKT-EDLTEMNVGVGVSHVGIKAGASRVNTWQNVLLAMQK 193 (198)
Q Consensus 130 A~IvKGLlALLl~~lnG~tpeEIl~~d~-~~l~~lgL~~~Ls~~~~~~SpsR~NGl~ail~~ikk 193 (198)
|.||||++|||+.+|||+||+||+++|+ +++.++||.+|| ||+|.||+.||+++||+
T Consensus 80 a~IvkGl~alL~~~~~g~tp~eI~~~d~~~~~~~lGL~~~L-------SpsR~NGl~am~~~I~~ 137 (138)
T TIGR03391 80 GRIVRGLLAVLLTAVEGKTPEQLLAQDPLALFDELGLRAQL-------SASRSNGLAALAAAIQN 137 (138)
T ss_pred cHHHHHHHHHHHHHHcCCCHHHHHHCCHHHHHHHcCchhcc-------CccHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999 556899999999 99999999999999985
No 2
>PRK09296 cysteine desufuration protein SufE; Provisional
Probab=100.00 E-value=5.2e-50 Score=322.37 Aligned_cols=131 Identities=18% Similarity=0.413 Sum_probs=125.5
Q ss_pred HHHHHHHHHhcCCCChHHHHHHHHHHhcCCCCCCccccccccccCCcccceeeEEEEccCCeEEEEEeCChhhHHHHHHH
Q 039855 60 TKLQLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQAKKVAGCATQVWLEVVMDERGRMRFRADSDSEISKGFCSC 139 (198)
Q Consensus 60 ~~l~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aDSDA~IvKGLlAL 139 (198)
++.++|+++|+.++||++||+|||++||+||+|||++|+++|+|+||||+|||.++.++||+++|+|||||.||||++||
T Consensus 5 ~~~~~i~~~f~~~~dwe~Ry~~LI~lgk~Lp~lpe~~r~~~~~V~GCqS~VWl~~~~~~~g~~~f~~dSDa~ivkGl~al 84 (138)
T PRK09296 5 PDKEKLLRNFSRCANWEEKYLYIIELGQRLPPLTDEDRSPQNLIQGCQSQVWIVMRQNAQGIIELQGDSDAAIVKGLIAV 84 (138)
T ss_pred hhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCCCCHHHcCccccCCCcccceeeeEeecCCCEEEEEEecccHHHHHHHHH
Confidence 46689999999999999999999999999999999999999999999999999988777799999999999999999999
Q ss_pred HHHHhcCCChHHHhcCCh-hHHHhcCccccccccCCCCCCcchHHHHHHHHHHHHHHhc
Q 039855 140 LIMVLDGAEPEEVLGFKT-EDLTEMNVGVGVSHVGIKAGASRVNTWQNVLLAMQKRTRC 197 (198)
Q Consensus 140 Ll~~lnG~tpeEIl~~d~-~~l~~lgL~~~Ls~~~~~~SpsR~NGl~ail~~ikk~a~~ 197 (198)
|+.+|||+||+||+++|+ +++.++||.+|| ||+|.||+.||+++||++|.+
T Consensus 85 L~~~~~g~tp~eIl~~d~~~~~~~lGL~~~L-------SpsR~nGl~aml~~ik~~a~~ 136 (138)
T PRK09296 85 VFILYQQMTPQDIVNFDVRPWFEKLALTQHL-------TPSRSQGLEAMIRAIRAKAAA 136 (138)
T ss_pred HHHHHcCCCHHHHHhCChHHHHHHcCccccc-------CccHHHHHHHHHHHHHHHHHH
Confidence 999999999999999996 667899999999 999999999999999999975
No 3
>PRK15019 CsdA-binding activator; Provisional
Probab=100.00 E-value=1.3e-49 Score=323.21 Aligned_cols=138 Identities=27% Similarity=0.445 Sum_probs=129.3
Q ss_pred CCCCCcCCchHHHHHHHHHhcCCCChHHHHHHHHHHhcCCCCCCccccccccccCCcccceeeEEEEccCCeEEEEEeCC
Q 039855 50 RNPEPIATTSTKLQLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQAKKVAGCATQVWLEVVMDERGRMRFRADSD 129 (198)
Q Consensus 50 ~~p~~~~~~~~~l~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aDSD 129 (198)
++|++ ...++++|+++|+.++||++||+|||+|||+||+|||++|+++|+|+||||+|||.++.++||+++|+||||
T Consensus 8 ~~~m~---~~~~~~~i~~~f~~~~dweeRy~~LI~lgk~Lp~lpe~~r~~~~~V~GCqS~VWL~~~~~~dg~~~f~~dSD 84 (147)
T PRK15019 8 GHPFG---TTVTAETLRNTFAPLTQWEDKYRQLIMLGKQLPALPDELKAQAKEIAGCENRVWLGYTVAENGKMHFFGDSE 84 (147)
T ss_pred CCCCC---chhhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCCCChHHcCccCcCCCcccceeeeeeecCCCEEEEEeeCc
Confidence 34555 457999999999999999999999999999999999999999999999999999988876689999999999
Q ss_pred hhhHHHHHHHHHHHhcCCChHHHhcCCh-hHHHhcCccccccccCCCCCCcchHHHHHHHHHHHHHHhc
Q 039855 130 SEISKGFCSCLIMVLDGAEPEEVLGFKT-EDLTEMNVGVGVSHVGIKAGASRVNTWQNVLLAMQKRTRC 197 (198)
Q Consensus 130 A~IvKGLlALLl~~lnG~tpeEIl~~d~-~~l~~lgL~~~Ls~~~~~~SpsR~NGl~ail~~ikk~a~~ 197 (198)
|.||||++|||+.+|||+||+||+++|+ +++.++||.+|| ||+|.||+.+|+++|++.|..
T Consensus 85 A~IvkGl~alL~~~~~g~tp~eIl~~d~~~~~~~lGL~~~L-------SpsR~NGl~ami~~I~~~a~~ 146 (147)
T PRK15019 85 GRIVRGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQL-------SASRSQGLNALSEAIIAATKQ 146 (147)
T ss_pred cHHHHHHHHHHHHHHcCCCHHHHHhcCHHHHHHHCCchhhc-------CccHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999 556899999999 999999999999999999853
No 4
>COG2166 sufE Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.6e-49 Score=320.03 Aligned_cols=138 Identities=27% Similarity=0.494 Sum_probs=132.2
Q ss_pred CCCCCCcCCchHHHHHHHHHhcCCCChHHHHHHHHHHhcCCCCCCccccccccccCCcccceeeEEEEccCCeEEEEEeC
Q 039855 49 ERNPEPIATTSTKLQLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQAKKVAGCATQVWLEVVMDERGRMRFRADS 128 (198)
Q Consensus 49 ~~~p~~~~~~~~~l~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aDS 128 (198)
+.|+.+ ++.++++|+++|..+.+||+||+|||++||+||+|||++|+++|+|+||||+|||+.+.++||.++|.+||
T Consensus 2 ~~~~~~---l~~~~~~i~~~F~~~~~wedrYr~lIe~gk~Lp~lpe~~~~~en~V~GC~S~vwL~~~~~~~~~~~F~gdS 78 (144)
T COG2166 2 TAHAAG---LPKTLEKIVEDFAELTNWEDRYRYLIELGKQLPPLPEELRAEENPVPGCQSQVWLVTEQNDDGTLHFFGDS 78 (144)
T ss_pred CCcccC---CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCCCCHHHHhhccCCCccccceeEEEeecCCceEEEeccc
Confidence 456666 88999999999999999999999999999999999999999999999999999999998867999999999
Q ss_pred ChhhHHHHHHHHHHHhcCCChHHHhcCCh-hHHHhcCccccccccCCCCCCcchHHHHHHHHHHHHHHh
Q 039855 129 DSEISKGFCSCLIMVLDGAEPEEVLGFKT-EDLTEMNVGVGVSHVGIKAGASRVNTWQNVLLAMQKRTR 196 (198)
Q Consensus 129 DA~IvKGLlALLl~~lnG~tpeEIl~~d~-~~l~~lgL~~~Ls~~~~~~SpsR~NGl~ail~~ikk~a~ 196 (198)
||.|||||+||++.+|||+||+||+++|+ +||.+|||.+|| ||+|.||+.+|+++||+.|.
T Consensus 79 dA~ivrGL~aill~~~~G~t~~eI~~~~~~~~f~~LGL~~~L-------SpsR~nGl~am~~~i~~~a~ 140 (144)
T COG2166 79 DARIVRGLLAILLAAYSGKTAAEILAFDPLDFFEELGLAQHL-------SPSRSNGLEAMLKRIKRKAA 140 (144)
T ss_pred hhHHHHHHHHHHHHHHcCCCHHHHHcCCHHHHHHHhhHHHhc-------ChHHhhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999 778999999999 99999999999999999986
No 5
>PF02657 SufE: Fe-S metabolism associated domain; InterPro: IPR003808 This entry represents the core domain of SufE and related proteins. This domain of SufE shows strong structural similarity to IscU, and the sulfur-acceptor site in SufE coincides with the location of the cysteine residues mediating Fe-S cluster assembly in IscU. Thus, a conserved core structure is implicated in mediating the interactions of both SufE and IscU with the mutually homologous cysteine desulfurase enzymes present in their respective operons [].; PDB: 1MZG_B 1WLO_A 3G0M_A 1NI7_A.
Probab=100.00 E-value=2.8e-48 Score=306.98 Aligned_cols=124 Identities=36% Similarity=0.628 Sum_probs=112.6
Q ss_pred HHHHhcCCCChHHHHHHHHHHhcCCCCCCccccccccccCCcccceeeEEEEccCCeEEEEEeCChhhHHHHHHHHHHHh
Q 039855 65 LVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQAKKVAGCATQVWLEVVMDERGRMRFRADSDSEISKGFCSCLIMVL 144 (198)
Q Consensus 65 iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aDSDA~IvKGLlALLl~~l 144 (198)
|+++|+.++||++||+|||++||+||+||+++|+++|+|+||||+|||....++||+++|.|||||.||||++|||+.+|
T Consensus 1 i~~~f~~~~~~~~ry~~Li~lgk~lp~l~~~~~~~~~~V~GC~S~vWl~~~~~~~g~~~f~adSda~ivkGl~all~~~~ 80 (125)
T PF02657_consen 1 IIEDFSSLDDWEERYRYLIDLGKKLPPLPEELRTDENLVHGCQSQVWLHVEEDEDGKVHFRADSDARIVKGLLALLLEVL 80 (125)
T ss_dssp -HHHHHCSSSHHHHHHHHHHHHHTS----CCCCSCCEEETSSSS-EEEEEEEETTSEEEEEEEESSHHHHHHHHHHHHHT
T ss_pred CHhHHhcCCCHHHHHHHHHHHHhcCCCCCHHHhcccccCCCCccceeEeeeeccCCEEEEEecCccHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999966666799999999999999999999999999
Q ss_pred cCCChHHHhcCChhHHHhcCccccccccCCCCCCcchHHHHHHHHHHHHHH
Q 039855 145 DGAEPEEVLGFKTEDLTEMNVGVGVSHVGIKAGASRVNTWQNVLLAMQKRT 195 (198)
Q Consensus 145 nG~tpeEIl~~d~~~l~~lgL~~~Ls~~~~~~SpsR~NGl~ail~~ikk~a 195 (198)
||+||+||+++|++|+.++||.+|| ||+|.||+.+|+++||++|
T Consensus 81 ~g~t~~eI~~~~~~fl~~lgl~~~L-------s~sR~nGl~~~~~~ik~~a 124 (125)
T PF02657_consen 81 NGQTPEEILAFDPDFLEQLGLSQHL-------SPSRSNGLLAMLQRIKEQA 124 (125)
T ss_dssp TT-BHHHHHHS-THHHHHHTSCCCS-------THHHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHhCCHHHHHHcCccccc-------CchHHHHHHHHHHHHHHHh
Confidence 9999999999999988999999999 9999999999999999987
No 6
>PLN02673 quinolinate synthetase A
Probab=100.00 E-value=4.2e-45 Score=350.64 Aligned_cols=169 Identities=56% Similarity=0.887 Sum_probs=148.3
Q ss_pred ccCCCCcceeeee-c---CCCCCCceecccCC-CCCCc-CCchHHHHHHHHHhcCCCChHHHHHHHHHHhcCCCCCCccc
Q 039855 23 SNVKRTPISNIRI-P---RNRSVKSFTCVHER-NPEPI-ATTSTKLQLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESG 96 (198)
Q Consensus 23 ~~~~~~~i~~~~~-~---~~~~~~~~~~~~~~-~p~~~-~~~~~~l~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~ 96 (198)
+++.+|.+.|.+. | +.++++.|+|+... +|.+. +.++.++++|+++|+.++||+|||+|||+|||+||+|||++
T Consensus 40 ~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~e~lP~kl~eIveeF~~l~dWEeRYr~LIeLGKkLPpLPEe~ 119 (724)
T PLN02673 40 INPLFKSFKCIQSPPPDSAPSNASPFSCSAVAFSPSQTTELVPCKLQRLIKEFKSLTEPVDRVKRLLHYASLLPPLPESS 119 (724)
T ss_pred CcchhceeeeecCCCCCCCCCCCCccceeeeecCCCcccccCCHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCCChHH
Confidence 4567788888554 3 34455677887655 44332 57899999999999999999999999999999999999999
Q ss_pred cccccccCCcccceeeEEEEccCCeEEEEEeCChhhHHHHHHHHHHHhcCCChHHHhcCChhHHHhcCccccccccCCCC
Q 039855 97 RVQAKKVAGCATQVWLEVVMDERGRMRFRADSDSEISKGFCSCLIMVLDGAEPEEVLGFKTEDLTEMNVGVGVSHVGIKA 176 (198)
Q Consensus 97 rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aDSDA~IvKGLlALLl~~lnG~tpeEIl~~d~~~l~~lgL~~~Ls~~~~~~ 176 (198)
|+++|+|+||||+|||.++.++||+++|+|||||.|||||+|||+.+|||+||+||+++|+++|.+|||+..- .
T Consensus 120 RtdenrV~GCQSqVWL~~eldddGkv~F~ADSDA~IVKGL~ALLl~~lsG~TpeEILavD~d~~~~LGLGL~~------~ 193 (724)
T PLN02673 120 RVESNRVMGCTAQVWLEAELDQDGKMRFWADSDSEITKGFCSCLIWVLDGASPEEVLELKTEDLAALNVGLPG------G 193 (724)
T ss_pred cCccccCCCcccceEEEEEEcCCCEEEEEEeCccHHHHHHHHHHHHHHcCCCHHHHHhCCHHHHHHHhhhhcc------c
Confidence 9999999999999999999877799999999999999999999999999999999999999888888777542 2
Q ss_pred CCcchHHHHHHHHHHHHHHhc
Q 039855 177 GASRVNTWQNVLLAMQKRTRC 197 (198)
Q Consensus 177 SpsR~NGl~ail~~ikk~a~~ 197 (198)
||+|.|||+||+++|+++|+.
T Consensus 194 SPSRsNGL~nML~~Iq~~Ar~ 214 (724)
T PLN02673 194 ERSRVNTWHNVLVSMQKRTRR 214 (724)
T ss_pred CCchhHHHHHHHHHHHHHHHH
Confidence 999999999999999999875
No 7
>PRK11325 scaffold protein; Provisional
Probab=94.19 E-value=1.4 Score=34.80 Aligned_cols=77 Identities=16% Similarity=0.258 Sum_probs=54.9
Q ss_pred CCcccceeeEEEEccCCe---EEEEEeCChhhHHHHHHHHHHHhcCCChHHHhcCChhHHH-hcCccccccccCCCCCCc
Q 039855 104 AGCATQVWLEVVMDERGR---MRFRADSDSEISKGFCSCLIMVLDGAEPEEVLGFKTEDLT-EMNVGVGVSHVGIKAGAS 179 (198)
Q Consensus 104 ~GCqS~VWL~~~~~~dg~---v~F~aDSDA~IvKGLlALLl~~lnG~tpeEIl~~d~~~l~-~lgL~~~Ls~~~~~~Sps 179 (198)
..|-..|=|.+.++++|+ +.|.++.= .|..+-++++.+.+.|+|.+|+.+++.+.+. .+| + .|.
T Consensus 35 p~CGD~i~l~l~v~~~~~I~d~~f~~~GC-~is~Asas~~~e~~~Gktl~ea~~i~~~~i~~~lg----~-------p~~ 102 (127)
T PRK11325 35 PACGDVMKLQIKVNDEGIIEDAKFKTYGC-GSAIASSSLVTEWVKGKTLDEALAIKNTDIAEELA----L-------PPV 102 (127)
T ss_pred CCCccEEEEEEEECCCCeEEEEEEEeeCC-HHHHHHHHHHHHHHcCCCHHHHHhcCHHHHHHHcC----C-------Ccc
Confidence 349998888777754564 45554443 6778889999999999999999999988774 443 4 678
Q ss_pred chHHHHHHHHHHH
Q 039855 180 RVNTWQNVLLAMQ 192 (198)
Q Consensus 180 R~NGl~ail~~ik 192 (198)
|.+=-.-....++
T Consensus 103 r~~CA~la~~al~ 115 (127)
T PRK11325 103 KIHCSILAEDAIK 115 (127)
T ss_pred cchHHHHHHHHHH
Confidence 8765333333433
No 8
>TIGR03419 NifU_clost FeS cluster assembly scaffold protein NifU, Clostridium type. NifU and NifS form a pair of iron-sulfur (FeS) cluster biosynthesis proteins much simpler than the ISC and SUF systems. Members of this protein family are a distinct group of NifU-like proteins, found always to a NifS-like protein and restricted to species that lack a SUF system. Typically, NIF systems service a smaller number of FeS-containing proteins than do ISC or SUF. Members of this particular branch typically are found, almost half the time, near the mnmA gene, involved in the carboxymethylaminomethyl modification of U34 in some tRNAs (see GenProp0704). While other NifU proteins are associated with nitrogen fixation, this family is not.
Probab=94.14 E-value=1.1 Score=34.97 Aligned_cols=102 Identities=11% Similarity=0.140 Sum_probs=66.6
Q ss_pred HHHHHhcCCCCCC---ccccccccccCCcccceeeEEEEccCCe---EEEEEeCChhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 81 RLLDYAAVLPGLD---ESGRVQAKKVAGCATQVWLEVVMDERGR---MRFRADSDSEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 81 ~LI~lgk~Lp~lp---e~~rt~~n~V~GCqS~VWL~~~~~~dg~---v~F~aDSDA~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
.|+++.++..... ...-+....-..|-..|=|....+ +|+ +.|.++.= .|...-++++.+.+.|+|.+|+.+
T Consensus 4 ~il~~~~np~~~g~l~~~~~~~~~~np~CGD~i~l~l~i~-~~~I~d~~f~~~GC-~is~Asas~~~e~i~Gk~l~ea~~ 81 (121)
T TIGR03419 4 KVMDHFMNPRNVGEIENADGVGEVGNPKCGDIMKIFLKVE-DDIIKDVKFKTFGC-GAAIASSSMATEMIKGKTLEEAWE 81 (121)
T ss_pred HHHHHHhCCCCCCCCCCCCeEEEeCCCCCccEEEEEEEEc-CCEEEEEEEEEecc-HHHHHHHHHHHHHHcCCCHHHHHH
Confidence 4666666544432 222233344456999988888775 554 45555432 677888999999999999999999
Q ss_pred CChhHHH-hcCccccccccCCCCCCcchHHHHHHHHHHHHH
Q 039855 155 FKTEDLT-EMNVGVGVSHVGIKAGASRVNTWQNVLLAMQKR 194 (198)
Q Consensus 155 ~d~~~l~-~lgL~~~Ls~~~~~~SpsR~NGl~ail~~ikk~ 194 (198)
+..+.+. .+| .+ .|.|..--.-....+++.
T Consensus 82 i~~~~i~~~l~---~l-------~~~r~~CA~la~~al~~a 112 (121)
T TIGR03419 82 LTNKAVAEALD---GL-------PPVKMHCSVLAEEAIHKA 112 (121)
T ss_pred hhhHHHHHHHc---CC-------CcccCHHHHHHHHHHHHH
Confidence 9876553 332 24 788987655555555543
No 9
>TIGR01999 iscU FeS cluster assembly scaffold IscU. This model represents IscU, a homolog of the N-terminal region of NifU, an Fe-S cluster assembly protein found mostly in nitrogen-fixing bacteria. IscU is considered part of the IscSUA-hscAB-fdx system of Fe-S assembly, whereas NifU is found in nitrogenase-containing (nitrogen-fixing) species. A NifU-type protein is also found in Helicobacter and Campylobacter. IscU and NifU are considered scaffold proteins on which Fe-S clusters are assembled before transfer to apoproteins. This model excludes true NifU proteins as in Klebsiella pneumoniae and Anabaena sp. as well as archaeal homologs. It includes largely proteobacterial and eukaryotic forms.
Probab=93.87 E-value=1.9 Score=33.74 Aligned_cols=77 Identities=14% Similarity=0.249 Sum_probs=54.8
Q ss_pred CcccceeeEEEEccCCe---EEEEEeCChhhHHHHHHHHHHHhcCCChHHHhcCChhHHHh-cCccccccccCCCCCCcc
Q 039855 105 GCATQVWLEVVMDERGR---MRFRADSDSEISKGFCSCLIMVLDGAEPEEVLGFKTEDLTE-MNVGVGVSHVGIKAGASR 180 (198)
Q Consensus 105 GCqS~VWL~~~~~~dg~---v~F~aDSDA~IvKGLlALLl~~lnG~tpeEIl~~d~~~l~~-lgL~~~Ls~~~~~~SpsR 180 (198)
-|-..|=|.+.++++|+ +.|.++. =.+...-++++.+.+.|+|.+|+..++.+.+.+ +| + .|.|
T Consensus 34 ~CGD~i~l~l~v~~~~~I~d~~f~~~G-C~~s~Asas~~~e~i~Gktl~ea~~i~~~~i~~~lg----~-------p~~r 101 (124)
T TIGR01999 34 ACGDVMKLQIKVNDDGIIEDAKFKTFG-CGSAIASSSLATELIKGKSLEEALKIKNTEIAKELS----L-------PPVK 101 (124)
T ss_pred CCccEEEEEEEECCCCeEEEEEEEecC-cHHHHHHHHHHHHHHcCCCHHHHHhccHHHHHHHcC----C-------Cccc
Confidence 39998888887764464 4455442 277888999999999999999999999887643 43 4 6888
Q ss_pred hHHHHHHHHHHHH
Q 039855 181 VNTWQNVLLAMQK 193 (198)
Q Consensus 181 ~NGl~ail~~ikk 193 (198)
..--.-....+++
T Consensus 102 ~~CA~l~~~al~~ 114 (124)
T TIGR01999 102 LHCSLLAEDAIKA 114 (124)
T ss_pred chHHHHHHHHHHH
Confidence 7654433444443
No 10
>PF01592 NifU_N: NifU-like N terminal domain; InterPro: IPR002871 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the N-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal and a C-terminal domain (IPR001075 from INTERPRO) []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 3LVL_A 4EB5_C 4EB7_C 1WFZ_A 2Z7E_C 2AZH_A 1XJS_A 1Q48_A 1R9P_A 2KQK_A ....
Probab=93.11 E-value=0.78 Score=35.93 Aligned_cols=70 Identities=21% Similarity=0.382 Sum_probs=52.0
Q ss_pred CCCcccc-ccccccCCcccceeeEEEEccC-Ce---EEEEEeCChhhHHHHHHHHHHHhcCCChHHHhcCChhHHH
Q 039855 91 GLDESGR-VQAKKVAGCATQVWLEVVMDER-GR---MRFRADSDSEISKGFCSCLIMVLDGAEPEEVLGFKTEDLT 161 (198)
Q Consensus 91 ~lpe~~r-t~~n~V~GCqS~VWL~~~~~~d-g~---v~F~aDSDA~IvKGLlALLl~~lnG~tpeEIl~~d~~~l~ 161 (198)
.+++... +....-..|-..|=|.+.++++ |+ +.|.+..- .+...-++++.+.+.|+|.+|+.+++.+++.
T Consensus 18 ~l~~~~~~~~~~~n~~CGD~i~i~l~i~~~~~~I~d~~f~~~GC-~~~~Asas~~~~~i~gk~l~ea~~i~~~~i~ 92 (126)
T PF01592_consen 18 KLEDADAGTGEAGNPSCGDEIRIYLKIDDDGGRIKDAKFQGFGC-AISIASASMMCELIKGKTLEEALKITAEDIE 92 (126)
T ss_dssp SSTTTSSEEEEEEETTTTEEEEEEEEESSSTSBEEEEEEEEESS-HHHHHHHHHHHHHHTTSBHHHHHCHHHHHHH
T ss_pred CCCCCCcceeeecCCCCCCEEEEEEEEecCCCeEEEEEEEeecC-hHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 3444443 4555667899988777777755 55 45555433 6788999999999999999999999877774
No 11
>cd06664 IscU_like Iron-sulfur cluster scaffold-like proteins. IscU_like and NifU_like proteins. IscU and NifU function as a scaffold for the assembly of [2Fe-2S] clusters before they are transferred to apo target proteins. They are highly conserved and play vital roles in the ISC and NIF systems of Fe-S protein maturation. NIF genes participate in nitrogen fixation in several isolated bacterial species. The NifU domain, however, is also found in bacteria that do not fix nitrogen, so it may have wider significance in the cell. Human IscU interacts with frataxin, the Friedreich ataxia gene product, and incorrectly spliced IscU has been shown to disrupt iron homeostasis in skeletal muscle and cause myopathy.
Probab=91.47 E-value=3.9 Score=31.39 Aligned_cols=83 Identities=18% Similarity=0.236 Sum_probs=55.3
Q ss_pred HHHHHHhcCC---CCCCccccccccccCCcccceeeEEEEccCCe-EEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 80 KRLLDYAAVL---PGLDESGRVQAKKVAGCATQVWLEVVMDERGR-MRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 80 ~~LI~lgk~L---p~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~-v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
+.|+++.+.. ..+++...+....-..|-..|=|.+..++ |+ .....+.+. .|...-++++.+.+.|++.+|+.+
T Consensus 4 ~~il~~~~~p~~~g~l~~~~~~~~~~n~~CGD~v~l~l~i~~-~~I~d~~f~~~GC~i~~Asas~~~~~~~Gk~~~ea~~ 82 (123)
T cd06664 4 EIILDHYRNPRNVGRLEDADGTGEVGNPLCGDEITLYLKVED-GRITDAKFQGFGCAISIASASLLTELIKGKTLDEALK 82 (123)
T ss_pred HHHHHHhhCCCCCCCCCCCCeEEEcCCCCCCceEEEEEEEcC-CEEEEEEEEecCcHHHHHHHHHHHHHHcCCcHHHHHH
Confidence 3466766652 22333223333334459999988888764 54 333344444 677888999999999999999999
Q ss_pred CChhHHHhc
Q 039855 155 FKTEDLTEM 163 (198)
Q Consensus 155 ~d~~~l~~l 163 (198)
+..++...+
T Consensus 83 i~~~~~~~~ 91 (123)
T cd06664 83 LLNKDIAML 91 (123)
T ss_pred HHHHHHHHh
Confidence 988776543
No 12
>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU. Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens.
Probab=88.46 E-value=6 Score=35.66 Aligned_cols=95 Identities=12% Similarity=0.168 Sum_probs=61.1
Q ss_pred HHHHHHhcCCCCCCc---cccccccccCCcccceeeEEEEcc-CCe-EEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHh
Q 039855 80 KRLLDYAAVLPGLDE---SGRVQAKKVAGCATQVWLEVVMDE-RGR-MRFRADSD-SEISKGFCSCLIMVLDGAEPEEVL 153 (198)
Q Consensus 80 ~~LI~lgk~Lp~lpe---~~rt~~n~V~GCqS~VWL~~~~~~-dg~-v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl 153 (198)
+.|+++.++.....+ ..-+....-..|-..|=|...++. +|+ .......+ -.|...-++++.+.+.|+|.+|++
T Consensus 6 ~~Ildh~~nP~n~G~L~~~~~~g~~~np~CGD~i~l~l~vd~~~~~I~d~~F~~~GCais~ASAs~~~eli~Gktv~ea~ 85 (290)
T TIGR02000 6 DKVKEHFYNPKNAGVVEDANAVGEVGSISCGDALRLMLKVDPESDKIVDAGFQTFGCGSAIASSSALTEMIKGLTLDEAL 85 (290)
T ss_pred HHHHHHHhCcCCCCCCCCCCcEEEeCCCCCcceEEEEEEEcCCCCeEEEEEEEecCcHHHHHHHHHHHHHHcCCCHHHHH
Confidence 457777776554332 222222333458888877777753 454 23333344 367777789999999999999999
Q ss_pred cCChhHHHh-cCccccccccCCCCCCcchHHH
Q 039855 154 GFKTEDLTE-MNVGVGVSHVGIKAGASRVNTW 184 (198)
Q Consensus 154 ~~d~~~l~~-lgL~~~Ls~~~~~~SpsR~NGl 184 (198)
++..+++.+ ++ .+ .|.|.+=-
T Consensus 86 ~i~~~di~~~L~---~l-------pp~r~~CA 107 (290)
T TIGR02000 86 KVSNQDIADYLG---GL-------PPEKMHCS 107 (290)
T ss_pred HhhHHHHHHHHc---CC-------ChhhchHH
Confidence 998877754 32 24 68887653
No 13
>TIGR01994 SUF_scaf_2 SUF system FeS assembly protein, NifU family. Three iron-sulfur cluster assembly systems are known so far. ISC is broadly distributed while NIF tends to be associated with nitrogenase in nitrogen-fixing bacteria. The most recently described is SUF, believed to be important to maintain the function during aerobic stress of enzymes with labile Fe-S clusters. It is fairly widely distributed. This family represents one of two different proteins proposed to act as a scaffold on which the Fe-S cluster is built and from which it is transferred.
Probab=82.80 E-value=8.5 Score=30.65 Aligned_cols=78 Identities=17% Similarity=0.197 Sum_probs=53.4
Q ss_pred HHHHHhcCCCCCCc---cccccccccCCcccceeeEEEEccCCe-EEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhcC
Q 039855 81 RLLDYAAVLPGLDE---SGRVQAKKVAGCATQVWLEVVMDERGR-MRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLGF 155 (198)
Q Consensus 81 ~LI~lgk~Lp~lpe---~~rt~~n~V~GCqS~VWL~~~~~~dg~-v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~~ 155 (198)
.|+++.++.....+ ..-+....-.-|-..|=|.+.++ +|+ ..+..+.+. .|...-++++.+.+.|++.+|+..+
T Consensus 8 ~Ileh~~~p~n~g~l~~~~~~~~~~np~CGD~i~l~l~v~-~~~I~d~~f~~~GCais~Asas~~~e~i~Gk~~~ea~~l 86 (137)
T TIGR01994 8 VILDHYKNPRHRGKLEDATVQERGHNPTCGDEITLTVKLE-GDRIEDIAFEGEGCSISQASASMMTELIKGKTVEEALSL 86 (137)
T ss_pred HHHHHHhCCCCCCCCCCCCeeEEeCCCCCCcEEEEEEEEc-CCeEEEEEEEecccHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 47777776554332 12222334456999988888775 554 334444444 6888899999999999999999988
Q ss_pred ChhH
Q 039855 156 KTED 159 (198)
Q Consensus 156 d~~~ 159 (198)
...|
T Consensus 87 ~~~~ 90 (137)
T TIGR01994 87 VEAF 90 (137)
T ss_pred HHHH
Confidence 7654
No 14
>PF03900 Porphobil_deamC: Porphobilinogen deaminase, C-terminal domain; InterPro: IPR022418 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. Porphobilinogen deaminase (also known as hydroxymethylbilane synthase, 2.5.1.61 from EC) functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the polymerisation of four PBG molecules into the tetrapyrrole structure, preuroporphyrinogen, with the concomitant release of four molecules of ammonia. This enzyme uses a unique dipyrro-methane cofactor made from two molecules of PBG, which is covalently attached to a cysteine side chain. The tetrapyrrole product is synthesized in an ordered, sequential fashion, by initial attachment of the first pyrrole unit (ring A) to the cofactor, followed by subsequent additions of the remaining pyrrole units (rings B, C, D) to the growing pyrrole chain []. The link between the pyrrole ring and the cofactor is broken once all the pyrroles have been added. This enzyme is folded into three distinct domains that enclose a single, large active site that makes use of an aspartic acid as its one essential catalytic residue, acting as a general acid/base during catalysis [, ]. A deficiency of hydroxymethylbilane synthase is implicated in the neuropathic disease, Acute Intermittent Porphyria (AIP) []. This entry represents the C-terminal domain of porphobilinogen deaminase, an enzyme involved in tetrapyrrole biosynthesis. The structure of this alpha/beta domain consists of alpha-beta(3)-alpha in two layers []. Porphobilinogen deaminase has a three-domain structure. Domains 1 (N-terminal) and 2 are duplications with the same structure, resembling the transferrins and periplasmic binding proteins. The dipyrromethane cofactor is covalently linked to domain 3 (C-terminal), but is bound by extensive salt-bridges and hydrogen-bonds within the cleft between domains 1 and 2, at a position corresponding to the binding sites for small-molecule ligands in the analogous proteins []. The enzyme has a single catalytic site, and the flexibility between domains is thought to aid elongation of the polypyrrole product in the active-site cleft of the enzyme.; GO: 0033014 tetrapyrrole biosynthetic process; PDB: 3EQ1_B 3ECR_A 1GTK_A 1AH5_A 2YPN_A 1PDA_A 1YPN_A.
Probab=65.50 E-value=7.6 Score=27.56 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=17.4
Q ss_pred ccCCcccceeeEEEEccCCeEEEEE
Q 039855 102 KVAGCATQVWLEVVMDERGRMRFRA 126 (198)
Q Consensus 102 ~V~GCqS~VWL~~~~~~dg~v~F~a 126 (198)
.=-||+++|=.++..++++++++++
T Consensus 14 l~ggC~~Piga~a~~~~~~~l~l~~ 38 (74)
T PF03900_consen 14 LGGGCHSPIGAYAKIEGDERLRLRA 38 (74)
T ss_dssp CT--TTSSEEEEEEEETTE-EEEEE
T ss_pred hCCCCCCceeeEEEEcCCCEEEEEE
Confidence 3469999999999987544488875
No 15
>cd07477 Peptidases_S8_Subtilisin_subset Peptidase S8 family domain in Subtilisin proteins. This group is composed of many different subtilisins: Pro-TK-subtilisin, subtilisin Carlsberg, serine protease Pb92 subtilisin, and BPN subtilisins just to name a few. Pro-TK-subtilisin is a serine protease from the hyperthermophilic archaeon Thermococcus kodakaraensis and consists of a signal peptide, a propeptide, and a mature domain. TK-subtilisin is matured from pro-TK-subtilisin upon autoprocessing and degradation of the propeptide. Unlike other subtilisins though, the folding of the unprocessed form of pro-TK-subtilisin is induced by Ca2+ binding which is almost completed prior to autoprocessing. Ca2+ is required for activity unlike the bacterial subtilisins. The propeptide is not required for folding of the mature domain unlike the bacterial subtilases because of the stability produced from Ca2+ binding. Subtilisin Carlsberg is extremely similar in structure to subtilisin BPN'/Novo thoug
Probab=52.16 E-value=13 Score=30.50 Aligned_cols=34 Identities=9% Similarity=-0.053 Sum_probs=28.7
Q ss_pred eEEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 121 RMRFRADSD-SEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 121 ~v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
...+.+.|- +++|-|++|+|...+...+++||.+
T Consensus 190 ~~~~~GTS~Aap~vag~~All~~~~~~~~~~~i~~ 224 (229)
T cd07477 190 YAYLSGTSMATPHVAGVAALVWSKRPELTNAQVRQ 224 (229)
T ss_pred EEEEccHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 345667776 4999999999999999999999875
No 16
>cd07487 Peptidases_S8_1 Peptidase S8 family domain, uncharacterized subfamily 1. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=52.12 E-value=14 Score=30.89 Aligned_cols=35 Identities=20% Similarity=0.172 Sum_probs=29.6
Q ss_pred CeEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 120 GRMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 120 g~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
+...+.+.|=| ++|-|++|+++..+...+++||.+
T Consensus 222 ~~~~~~GTS~Aap~vaG~~All~~~~p~~~~~~ik~ 257 (264)
T cd07487 222 GYFEMSGTSMATPHVSGAIALLLQANPILTPDEVKC 257 (264)
T ss_pred ceEeccccchHHHHHHHHHHHHHHHCcCCCHHHHHH
Confidence 34567777874 999999999999999999999875
No 17
>cd04077 Peptidases_S8_PCSK9_ProteinaseK_like Peptidase S8 family domain in ProteinaseK-like proteins. The peptidase S8 or Subtilase clan of proteases have a Asp/His/Ser catalytic triad that is not homologous to trypsin. This CD contains several members of this clan including: PCSK9 (Proprotein convertase subtilisin/kexin type 9), Proteinase_K, Proteinase_T, and other subtilisin-like serine proteases. PCSK9 posttranslationally regulates hepatic low-density lipoprotein receptors (LDLRs) by binding to LDLRs on the cell surface, leading to their degradation. The binding site of PCSK9 has been localized to the epidermal growth factor-like repeat A (EGF-A) domain of the LDLR. Characterized Proteinases K are secreted endopeptidases with a high degree of sequence conservation. Proteinases K are not substrate-specific and function in a wide variety of species in different pathways. It can hydrolyze keratin and other proteins with subtilisin-like specificity. The number of calcium-binding moti
Probab=50.73 E-value=13 Score=31.45 Aligned_cols=35 Identities=17% Similarity=0.209 Sum_probs=29.5
Q ss_pred CeEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 120 GRMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 120 g~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
+...+.+.|=| ++|-|++|++++.+...+++||.+
T Consensus 212 ~~~~~~GTS~Aap~vaG~~All~~~~p~~~~~~v~~ 247 (255)
T cd04077 212 ATATLSGTSMAAPHVAGLAAYLLSLGPDLSPAEVKA 247 (255)
T ss_pred cEEeeCcHHHHHHHHHHHHHHHHhhCCCCCHHHHHH
Confidence 34556677764 999999999999999999999976
No 18
>cd07483 Peptidases_S8_Subtilisin_Novo-like Peptidase S8 family domain in Subtilisin_Novo-like proteins. Subtilisins are a group of alkaline proteinases originating from different strains of Bacillus subtilis. Novo is one of the strains that produced enzymes belonging to this group. The enzymes obtained from the Novo and BPN' strains are identical. The Carlsburg and Novo subtilisins are thought to have arisen from a common ancestral protein. They have similar peptidase and esterase activities, pH profiles, catalyze transesterification reactions, and are both inhibited by diispropyl fluorophosphate, though they differ in 85 positions in the amino acid sequence. Members of the peptidases S8 and S35 clan include endopeptidases, exopeptidases and also a tripeptidyl-peptidase. The S8 family has an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The S53 family contains a cat
Probab=48.37 E-value=17 Score=31.83 Aligned_cols=33 Identities=12% Similarity=0.050 Sum_probs=27.6
Q ss_pred EEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 122 MRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 122 v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
..+.+.|=| ++|-|++|+++..+-..|++||.+
T Consensus 251 ~~~sGTS~AaP~vaG~aAl~~s~~p~lt~~~v~~ 284 (291)
T cd07483 251 ETDSGTSMAAPVVSGVAALIWSYYPNLTAKEVKQ 284 (291)
T ss_pred EeeccHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 445566654 899999999999999999999975
No 19
>cd07498 Peptidases_S8_15 Peptidase S8 family domain, uncharacterized subfamily 15. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=47.32 E-value=15 Score=30.55 Aligned_cols=34 Identities=18% Similarity=0.220 Sum_probs=28.1
Q ss_pred eEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 121 RMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 121 ~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
...+.+.|=| .+|-|++|+++...-..+++||.+
T Consensus 203 ~~~~~GTS~Aap~vaG~~All~~~~p~l~~~~i~~ 237 (242)
T cd07498 203 YGSFSGTSFASPVAAGVAALILSANPNLTPAEVED 237 (242)
T ss_pred eEeeCcHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 3456667764 899999999999999999999865
No 20
>cd07072 NR_LBD_DHR38_like Ligand binding domain of DHR38_like proteins, members of the nuclear receptor superfamily. The ligand binding domain of nuclear receptor DHR38_like proteins: DHR38 is a member of the steroid receptor superfamily in Drosophila. DHR38 interacts with the USP component of the ecdysone receptor complex, suggesting that DHR38 might modulate ecdysone-triggered signals in the fly, in addition to the ECR/USP pathway. At least four differentially expressed mRNA isoforms have been detected during development. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR38 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=46.04 E-value=6.2 Score=34.37 Aligned_cols=78 Identities=15% Similarity=0.263 Sum_probs=50.4
Q ss_pred cccCCCCCCcCCchHHHHHHHHHhcCCCChHHHHHHHHHHhcCCCCCCcccccc-ccccCCcccceeeEE----EEccCC
Q 039855 46 CVHERNPEPIATTSTKLQLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQ-AKKVAGCATQVWLEV----VMDERG 120 (198)
Q Consensus 46 ~~~~~~p~~~~~~~~~l~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~-~n~V~GCqS~VWL~~----~~~~dg 120 (198)
++..+.|.+ .+.+....+.++.|..+-. .-.+.+|+++|++|.+.+=-..| ..+.++|-..+|+-- ....++
T Consensus 25 ~~~~~~~~~-~~~~~~~~~~~~~~~~l~t--~~i~~iv~wAK~IPgF~~L~~~DQi~LLk~~w~Ell~L~~a~r~~~~~~ 101 (239)
T cd07072 25 YSQYREPSP-LEPPMSEAEKVQQFYSLLT--SSIDVIKTFAEKIPGFPDLCKEDQELLFQSASLELFVLRLAYRTAPEDT 101 (239)
T ss_pred ccccCCCCc-ccCCcchHHHHHHHHHHHH--HHHHHHHHHhccCCCccCCCHHHHHHHHHHhHHHHHHHHHHHHccCCCC
Confidence 444443333 2344555566777776654 45678999999999999865555 688999999887621 112356
Q ss_pred eEEEEE
Q 039855 121 RMRFRA 126 (198)
Q Consensus 121 ~v~F~a 126 (198)
++.|..
T Consensus 102 ~l~~~~ 107 (239)
T cd07072 102 KLTFCN 107 (239)
T ss_pred eEEeeC
Confidence 666653
No 21
>cd07482 Peptidases_S8_Lantibiotic_specific_protease Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases. Lantiobiotic (lanthionine-containing antibiotics) specific proteases are very similar in structure to serine proteases. Lantibiotics are ribosomally synthesised antimicrobial agents derived from ribosomally synthesised peptides with antimicrobial activities against Gram-positive bacteria. The proteases that cleave the N-terminal leader peptides from lantiobiotics include: epiP, nsuP, mutP, and nisP. EpiP, from Staphylococcus, is thought to cleave matured epidermin. NsuP, a dehydratase from Streptococcus and NisP, a membrane-anchored subtilisin-like serine protease from Lactococcus cleave nisin. MutP is highly similar to epiP and nisP and is thought to process the prepeptide mutacin III of S. mutans. Members of the peptidases S8 (subtilisin and kexin) and S53 (sedolisin) clan include endopeptidases and exopeptidases. The S8 family h
Probab=45.86 E-value=24 Score=30.08 Aligned_cols=34 Identities=15% Similarity=0.049 Sum_probs=29.1
Q ss_pred eEEEEEeCCh-hhHHHHHHHHHHHhcCCCh-HHHhc
Q 039855 121 RMRFRADSDS-EISKGFCSCLIMVLDGAEP-EEVLG 154 (198)
Q Consensus 121 ~v~F~aDSDA-~IvKGLlALLl~~lnG~tp-eEIl~ 154 (198)
-..+.+.|=| ++|-|++|+|+..+.+.++ +||.+
T Consensus 254 ~~~~~GTS~AaP~VaG~aAll~~~~p~~~~~~~v~~ 289 (294)
T cd07482 254 YAYMYGTSLAAPKVSGALALIIDKNPLKKPPDEAIR 289 (294)
T ss_pred eEeecchhhhhHHHHHHHHHHHHHCCCCCcHHHHHH
Confidence 3566778875 9999999999999999999 88865
No 22
>cd04848 Peptidases_S8_Autotransporter_serine_protease_like Peptidase S8 family domain in Autotransporter serine proteases. Autotransporter serine proteases belong to Peptidase S8 or Subtilase family. Subtilases, or subtilisin-like serine proteases, have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure (an example of convergent evolution). Autotransporters are a superfamily of outer membrane/secreted proteins of gram-negative bacteria. The presence of these subtilisin-like domains in these autotransporters are may enable them to be auto-catalytic and may also serve to allow them to act as a maturation protease cleaving other outer membrane proteins at the cell surface.
Probab=44.62 E-value=21 Score=29.57 Aligned_cols=35 Identities=17% Similarity=0.073 Sum_probs=29.6
Q ss_pred CeEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 120 GRMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 120 g~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
....+.+.|=| ++|-|++|++++.+-..+++||.+
T Consensus 225 ~~~~~~GTS~Aap~vaG~~Al~~~~~p~l~~~~v~~ 260 (267)
T cd04848 225 GYGRVSGTSFAAPHVSGAAALLAQKFPWLTADQVRQ 260 (267)
T ss_pred cccccceeEchHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 34566777764 999999999999999999999876
No 23
>cd07492 Peptidases_S8_8 Peptidase S8 family domain, uncharacterized subfamily 8. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=44.31 E-value=32 Score=28.31 Aligned_cols=35 Identities=9% Similarity=0.104 Sum_probs=28.8
Q ss_pred CeEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 120 GRMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 120 g~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
+...+.+.|=| ++|-|++|+++..+-..+++||.+
T Consensus 180 ~~~~~~GTS~Aap~vaG~~All~~~~p~l~~~~v~~ 215 (222)
T cd07492 180 RYLTVSGNSFAAPHVTGMVALLLSEKPDIDANDLKR 215 (222)
T ss_pred CEEEeccHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 33456666764 899999999999999999999875
No 24
>cd07485 Peptidases_S8_Fervidolysin_like Peptidase S8 family domain in Fervidolysin. Fervidolysin found in Fervidobacterium pennivorans is an extracellular subtilisin-like keratinase. It is contains a signal peptide, a propeptide, and a catalytic region. The tertiary structure of fervidolysin is similar to that of subtilisin. It contains a Asp/His/Ser catalytic triad and is a member of the peptidase S8 (subtilisin and kexin) family. The catalytic triad is similar to that found in trypsin-like proteases, but it does not share their three-dimensional structure and are not homologous to trypsin. Serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base. The S53 family contains a catalytic triad Glu/Asp/Ser with an additional acidic residue Asp in the oxyanion hole, similar to that of subtilisin. The serine residue here is the nucleophilic equivalent of the serine residue in the S8 family, while glutamic acid has the same role here as the histidine base. Howev
Probab=44.08 E-value=21 Score=30.66 Aligned_cols=34 Identities=12% Similarity=0.133 Sum_probs=28.2
Q ss_pred eEEEEEeCC-hhhHHHHHHHHHHHhcC-CChHHHhc
Q 039855 121 RMRFRADSD-SEISKGFCSCLIMVLDG-AEPEEVLG 154 (198)
Q Consensus 121 ~v~F~aDSD-A~IvKGLlALLl~~lnG-~tpeEIl~ 154 (198)
...+.+.|= +++|-|++|+|++.+.. .+|+||.+
T Consensus 233 ~~~~sGTS~AaP~VaG~aAll~~~~~~~~~~~~i~~ 268 (273)
T cd07485 233 YEYLSGTSMAAPHVSGVAALVLSKFPDVFTPEQIRK 268 (273)
T ss_pred eEeeccHHHHHHHHHHHHHHHHHhCCCCCCHHHHHH
Confidence 345556665 49999999999999999 99999875
No 25
>cd04059 Peptidases_S8_Protein_convertases_Kexins_Furin-like Peptidase S8 family domain in Protein convertases. Protein convertases, whose members include furins and kexins, are members of the peptidase S8 or Subtilase clan of proteases. They have an Asp/His/Ser catalytic triad that is not homologous to trypsin. Kexins are involved in the activation of peptide hormones, growth factors, and viral proteins. Furin cleaves cell surface vasoactive peptides and proteins involved in cardiovascular tissue remodeling in the TGN, at cell surface, or in endosomes but rarely in the ER. Furin also plays a key role in blood pressure regulation though the activation of transforming growth factor (TGF)-beta. High specificity is seen for cleavage after dibasic (Lys-Arg or Arg-Arg) or multiple basic residues in protein convertases. There is also strong sequence conservation.
Probab=42.70 E-value=12 Score=32.16 Aligned_cols=33 Identities=9% Similarity=0.082 Sum_probs=28.2
Q ss_pred EEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 122 MRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 122 v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
..+.+.|=| ++|-|++||+++.+-+.++.||.+
T Consensus 257 ~~~sGTS~AaP~VAG~aAll~~~~p~lt~~~v~~ 290 (297)
T cd04059 257 SSHNGTSAAAPLAAGVIALMLEANPNLTWRDVQH 290 (297)
T ss_pred cccCCcchhhhhhHhHHHHhhccCCCCCHHHHHH
Confidence 456677765 899999999999999999999875
No 26
>cd07473 Peptidases_S8_Subtilisin_like Peptidase S8 family domain in Subtilisin-like proteins. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=42.49 E-value=27 Score=29.30 Aligned_cols=34 Identities=9% Similarity=0.013 Sum_probs=28.8
Q ss_pred eEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 121 RMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 121 ~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
...+.+.|-| ++|-|.+|+++..+...+++||.+
T Consensus 218 ~~~~~GTS~AaP~vaG~~All~~~~~~~t~~~v~~ 252 (259)
T cd07473 218 YGYMSGTSMATPHVAGAAALLLSLNPNLTAAQIKD 252 (259)
T ss_pred EEEeccHhHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 3456677764 999999999999999999999876
No 27
>cd04847 Peptidases_S8_Subtilisin_like_2 Peptidase S8 family domain in Subtilisin-like proteins. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=39.54 E-value=21 Score=30.93 Aligned_cols=36 Identities=17% Similarity=0.235 Sum_probs=29.9
Q ss_pred CeEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhcC
Q 039855 120 GRMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLGF 155 (198)
Q Consensus 120 g~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~~ 155 (198)
+-..+.+.|=| ++|-|++|+|+..+-+.+|++|.++
T Consensus 249 ~~~~~~GTS~AaP~Vag~aAll~~~~p~~t~~~ikal 285 (291)
T cd04847 249 GFVTVGGTSFAAPLAARLAAGLFAELPELSPETIRAL 285 (291)
T ss_pred cccccccchHHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence 33566777775 9999999999999999999998763
No 28
>cd05562 Peptidases_S53_like Peptidase domain in the S53 family. Members of the peptidase S53 (sedolisin) family include endopeptidases and exopeptidases. The S53 family contains a catalytic triad Glu/Asp/Ser with an additional acidic residue Asp in the oxyanion hole, similar to that of Asn in subtilisin. The stability of these enzymes may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values. Characterized sedolisins include Kumamolisin, an extracellular calcium-dependent thermostable endopeptidase from Bacillus. The enzyme is synthesized with a 188 amino acid N-terminal preprotein region which is cleaved after the extraction into the extracellular space with low pH. One kumamolysin paralog, kumamolisin-As, is believed to be a collagenase. TPP1 is a serine protease that functi
Probab=38.97 E-value=31 Score=30.23 Aligned_cols=36 Identities=17% Similarity=0.294 Sum_probs=30.6
Q ss_pred CCeEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 119 RGRMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 119 dg~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
++-..+.+.|=| ++|-|++|||++.+-..+++||.+
T Consensus 208 ~~~~~~sGTS~AaP~VaG~aALl~~~~p~lt~~~v~~ 244 (275)
T cd05562 208 DGPPNFFGTSAAAPHAAGVAALVLSANPGLTPADIRD 244 (275)
T ss_pred CceeecccchHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 344567788875 999999999999999999999876
No 29
>cd07494 Peptidases_S8_10 Peptidase S8 family domain, uncharacterized subfamily 10. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=37.22 E-value=39 Score=29.95 Aligned_cols=34 Identities=21% Similarity=0.332 Sum_probs=29.5
Q ss_pred eEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 121 RMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 121 ~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
-..+.+.|-| .+|.|.+|||.+.+-+.+++||.+
T Consensus 242 y~~~sGTS~Aap~vaG~aAll~~~~p~~~~~~v~~ 276 (298)
T cd07494 242 WGVFSGTSAAAPQVAGVCALMLQANPGLSPERARS 276 (298)
T ss_pred eEeeccchHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 3556788885 999999999999999999999874
No 30
>cd07490 Peptidases_S8_6 Peptidase S8 family domain, uncharacterized subfamily 6. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=34.45 E-value=32 Score=28.78 Aligned_cols=33 Identities=18% Similarity=0.229 Sum_probs=27.2
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
..+.+.|= +++|-|++|++++.+-..+++||.+
T Consensus 214 ~~~~GTS~AaP~vaG~aAl~~~~~p~~~~~~i~~ 247 (254)
T cd07490 214 TRLSGTSMAAPHVAGVAALLAAAHPDLSPEQIKD 247 (254)
T ss_pred eecccHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 34445565 4999999999999999999999876
No 31
>cd07474 Peptidases_S8_subtilisin_Vpr-like Peptidase S8 family domain in Vpr-like proteins. The maturation of the peptide antibiotic (lantibiotic) subtilin in Bacillus subtilis ATCC 6633 includes posttranslational modifications of the propeptide and proteolytic cleavage of the leader peptide. Vpr was identified as one of the proteases, along with WprA, that are capable of processing subtilin. Asp, Ser, His triadPeptidases S8 or Subtilases are a serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=34.33 E-value=36 Score=29.12 Aligned_cols=34 Identities=15% Similarity=0.101 Sum_probs=28.5
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHhcC
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVLDGAEPEEVLGF 155 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~~ 155 (198)
..+.+.|= +++|-|++|+++..+...+++||.+.
T Consensus 230 ~~~~GTS~AaP~vaG~aAll~~~~p~l~~~~v~~~ 264 (295)
T cd07474 230 ARMSGTSMAAPHVAGAAALLKQAHPDWSPAQIKAA 264 (295)
T ss_pred EEeccHHHHHHHHHHHHHHHHhhCCCCCHHHHHHH
Confidence 45666665 49999999999999999999998763
No 32
>COG0822 IscU NifU homolog involved in Fe-S cluster formation [Energy production and conversion]
Probab=32.97 E-value=2.7e+02 Score=22.68 Aligned_cols=79 Identities=15% Similarity=0.146 Sum_probs=54.0
Q ss_pred HHHHHHhcCCCCCCcccccc----ccccCCcccceeeEEEEccCCe-EEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHh
Q 039855 80 KRLLDYAAVLPGLDESGRVQ----AKKVAGCATQVWLEVVMDERGR-MRFRADSDS-EISKGFCSCLIMVLDGAEPEEVL 153 (198)
Q Consensus 80 ~~LI~lgk~Lp~lpe~~rt~----~n~V~GCqS~VWL~~~~~~dg~-v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl 153 (198)
+.+++..+.......-...+ .+--.-|-..+=|.+.++ +|+ ..+..+... .|.-.-.+++.+.+-|+|.+|++
T Consensus 9 ~~Ildh~~np~~~g~l~~~~~~~~~~~~~~CGD~i~l~lkv~-~~~I~d~~F~~~GC~is~ASss~~te~v~Gkti~EAl 87 (150)
T COG0822 9 EKILDHYKNPRNVGVLDDADVGVGHVGAPACGDVITLYLKVD-NGVIEDAKFKGFGCAISIASSSMMTELVKGKTLDEAL 87 (150)
T ss_pred HHHHHHhcCCCcCCccCccchhccccCCCCccceEEEEEEEc-CCEEEEEEeeecCcHHHHHHHHHHHHHHcCCCHHHHH
Confidence 45777777766655443222 333357999998888887 555 333444443 55566789999999999999999
Q ss_pred cCChhH
Q 039855 154 GFKTED 159 (198)
Q Consensus 154 ~~d~~~ 159 (198)
.+...+
T Consensus 88 ~i~~~~ 93 (150)
T COG0822 88 KITEAF 93 (150)
T ss_pred HHHHHH
Confidence 998444
No 33
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=31.59 E-value=1.7e+02 Score=21.88 Aligned_cols=49 Identities=27% Similarity=0.545 Sum_probs=28.6
Q ss_pred CcccceeeEEEEccC-Ce---EEEEEeC---ChhhHHHHHHHHHHHh-cCCChHHHhc
Q 039855 105 GCATQVWLEVVMDER-GR---MRFRADS---DSEISKGFCSCLIMVL-DGAEPEEVLG 154 (198)
Q Consensus 105 GCqS~VWL~~~~~~d-g~---v~F~aDS---DA~IvKGLlALLl~~l-nG~tpeEIl~ 154 (198)
||- .++|.+..++| |+ ++..... ....+.|+..++-.+| .|.+++||.+
T Consensus 6 ~~g-~~yvtv~~d~d~g~p~Evf~~~~~~Gg~~~~~~ai~rliS~~Lr~G~~~~~ii~ 62 (95)
T PF12637_consen 6 GCG-KLYVTVNFDEDNGRPFEVFINVGKAGGCSGNLEAIARLISLALRSGVPPEEIID 62 (95)
T ss_pred ccc-ceEEEEEeeCCCCcceEEEEecCcCCCchHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 443 77888887766 64 4333221 1445555555553333 8999988765
No 34
>cd04852 Peptidases_S8_3 Peptidase S8 family domain, uncharacterized subfamily 3. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=31.18 E-value=38 Score=29.63 Aligned_cols=31 Identities=16% Similarity=0.100 Sum_probs=25.9
Q ss_pred EEEeCC-hhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 124 FRADSD-SEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 124 F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
+.+.|= +++|-|++|||.+.+-..+|.||.+
T Consensus 269 ~sGTS~AaP~vaG~aALl~~~~p~~t~~~v~~ 300 (307)
T cd04852 269 ISGTSMASPHVAGVAALLKSAHPDWSPAAIKS 300 (307)
T ss_pred eCcHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 334454 4999999999999999999999876
No 35
>cd07496 Peptidases_S8_13 Peptidase S8 family domain, uncharacterized subfamily 13. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=30.13 E-value=40 Score=29.05 Aligned_cols=33 Identities=12% Similarity=0.087 Sum_probs=27.5
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
..+.+.|= +++|-|.+|++++...+.+++||.+
T Consensus 247 ~~~sGTS~AaP~vaG~aAlv~~~~p~lt~~~v~~ 280 (285)
T cd07496 247 GFLQGTSMAAPHVAGVAALMKSVNPSLTPAQIES 280 (285)
T ss_pred EeeCcHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence 34556665 4999999999999999999999875
No 36
>cd00306 Peptidases_S8_S53 Peptidase domain in the S8 and S53 families. Members of the peptidases S8 (subtilisin and kexin) and S53 (sedolisin) family include endopeptidases and exopeptidases. The S8 family has an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. Serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base. The S53 family contains a catalytic triad Glu/Asp/Ser with an additional acidic residue Asp in the oxyanion hole, similar to that of subtilisin. The serine residue here is the nucleophilic equivalent of the serine residue in the S8 family, while glutamic acid has the same role here as the histidine base. However, the aspartic acid residue that acts as an electrophile is quite different. In S53, it follows glutamic acid, while in S8 it precedes histidine. The stability of these enzymes may be enhanced by calcium; some members hav
Probab=29.90 E-value=43 Score=26.55 Aligned_cols=34 Identities=18% Similarity=0.198 Sum_probs=27.4
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHhcC
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVLDGAEPEEVLGF 155 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~~ 155 (198)
..+.+.|= +.+|-|++|++...+...+++|+.++
T Consensus 203 ~~~~GTS~Aap~vaG~~Al~~~~~~~~~~~~~~~~ 237 (241)
T cd00306 203 ATLSGTSMAAPIVAGVAALLLSANPDLTPAQVKAA 237 (241)
T ss_pred EeeccHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence 44445554 48999999999999999999998764
No 37
>cd07481 Peptidases_S8_BacillopeptidaseF-like Peptidase S8 family domain in BacillopeptidaseF-like proteins. Bacillus subtilis produces and secretes proteases and other types of exoenzymes at the end of the exponential phase of growth. The ones that make up this group is known as bacillopeptidase F, encoded by bpr, a serine protease with high esterolytic activity which is inhibited by PMSF. Like other members of the peptidases S8 family these have a Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of these enzymes may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity.
Probab=29.10 E-value=42 Score=28.59 Aligned_cols=33 Identities=9% Similarity=-0.036 Sum_probs=26.8
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHhcC--CChHHHhc
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVLDG--AEPEEVLG 154 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~lnG--~tpeEIl~ 154 (198)
..+.+.|= +++|-|++|++++.+-. .+++||.+
T Consensus 222 ~~~~GTS~AaP~vaG~aAll~~~~p~~~l~~~~v~~ 257 (264)
T cd07481 222 GSSSGTSMAAPHVAGVAALLWSANPSLIGDVDATEA 257 (264)
T ss_pred EeeCcHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHH
Confidence 34555665 49999999999999999 99888765
No 38
>cd07489 Peptidases_S8_5 Peptidase S8 family domain, uncharacterized subfamily 5. gap in seq This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=27.38 E-value=70 Score=27.93 Aligned_cols=34 Identities=18% Similarity=0.177 Sum_probs=28.2
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHh-cCCChHHHhcC
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVL-DGAEPEEVLGF 155 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~l-nG~tpeEIl~~ 155 (198)
..+.+.|= +++|-|++|+++..+ ...+++||.++
T Consensus 225 ~~~~GTS~Aap~vaG~~Al~~~~~~~~~~~~~v~~~ 260 (312)
T cd07489 225 AVLSGTSMATPYVAGAAALLIQARHGKLSPAELRDL 260 (312)
T ss_pred EeeccHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence 44556665 499999999999999 99999999763
No 39
>PRK14484 phosphotransferase mannnose-specific family component IIA; Provisional
Probab=26.74 E-value=91 Score=24.79 Aligned_cols=33 Identities=21% Similarity=0.417 Sum_probs=29.1
Q ss_pred CCeEEEEEeCChhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 119 RGRMRFRADSDSEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 119 dg~v~F~aDSDA~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
+.++++ +|+++|-|-++-.+..-.|.+.++|.+
T Consensus 83 ~~~v~~---~daPlVEGa~~Aav~~~~g~~l~~v~~ 115 (124)
T PRK14484 83 EKKIII---IDAPIVEGAFTAAVLLSAGASLDEILA 115 (124)
T ss_pred CCcEEE---ECCcHHHHHHHHHHHHcCCCCHHHHHH
Confidence 356666 899999999999999999999999976
No 40
>TIGR00212 hemC porphobilinogen deaminase. Biosynthesis of cofactors, prosthetic groups, and carriers: Heme and porphyrin
Probab=25.08 E-value=2.1e+02 Score=26.14 Aligned_cols=53 Identities=15% Similarity=0.178 Sum_probs=39.0
Q ss_pred HHHHHHhcCCCChHHHHHHHHHHhcCCCCCCccccccccccCCcccceeeEEEEccCCeEEEEEe
Q 039855 63 QLLVSEFDSLTEPIDRVKRLLDYAAVLPGLDESGRVQAKKVAGCATQVWLEVVMDERGRMRFRAD 127 (198)
Q Consensus 63 ~~iie~F~~l~dwe~Ry~~LI~lgk~Lp~lpe~~rt~~n~V~GCqS~VWL~~~~~~dg~v~F~aD 127 (198)
+++.+-|..+.|++.++....+-+= -...-.||++++-.+++.+ ++.+++++.
T Consensus 205 ~~~~~ll~~l~d~~t~~~~~aER~~-----------l~~L~ggC~~Piga~a~~~-~~~l~l~~~ 257 (292)
T TIGR00212 205 TEIKEILKEINHPPTRVEATAERAF-----------LKELGGGCQTPIGAYAEYN-GNKLTLIAM 257 (292)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHH-----------HHHhCCCCCCceEEEEEEe-CCEEEEEEE
Confidence 5677888899999999888766432 2334689999999988874 566777653
No 41
>cd05561 Peptidases_S8_4 Peptidase S8 family domain, uncharacterized subfamily 4. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=25.00 E-value=54 Score=27.83 Aligned_cols=34 Identities=9% Similarity=0.001 Sum_probs=27.5
Q ss_pred eEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhcC
Q 039855 121 RMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLGF 155 (198)
Q Consensus 121 ~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~~ 155 (198)
...+.+.|=| ++|-|++|+++..+- .+++||.+.
T Consensus 185 ~~~~sGTS~AaP~vaG~aAll~~~~p-~~~~~i~~~ 219 (239)
T cd05561 185 YRYVSGTSFAAPFVTAALALLLQASP-LAPDDARAR 219 (239)
T ss_pred EEEeCCHHHHHHHHHHHHHHHHhcCC-CCHHHHHHH
Confidence 3456677764 999999999999998 999998653
No 42
>cd07493 Peptidases_S8_9 Peptidase S8 family domain, uncharacterized subfamily 9. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=24.98 E-value=67 Score=27.22 Aligned_cols=33 Identities=12% Similarity=0.080 Sum_probs=27.2
Q ss_pred EEEEEeCC-hhhHHHHHHHHHHHhcCCChHHHhc
Q 039855 122 MRFRADSD-SEISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 122 v~F~aDSD-A~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
..+.+.|= +++|-|++|+++..+-..++.||.+
T Consensus 221 ~~~sGTS~AaP~vaG~aAll~~~~p~lt~~~i~~ 254 (261)
T cd07493 221 TYANGTSFSCPLIAGLIACLWQAHPNWTNLQIKE 254 (261)
T ss_pred EeeCcHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Confidence 34455565 4999999999999999999999875
No 43
>PTZ00262 subtilisin-like protease; Provisional
Probab=23.69 E-value=70 Score=32.28 Aligned_cols=34 Identities=15% Similarity=0.159 Sum_probs=28.7
Q ss_pred EEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhcC
Q 039855 122 MRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLGF 155 (198)
Q Consensus 122 v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~~ 155 (198)
..+.+.|=| ++|-|++|||+..+-+.+++||.+.
T Consensus 551 ~~~SGTSmAAP~VAGvAALLlS~~P~LT~~qV~~i 585 (639)
T PTZ00262 551 RKLNGTSMAAPHVAAIASLILSINPSLSYEEVIRI 585 (639)
T ss_pred eecCCCchhHHHHHHHHHHHHhhCCCCCHHHHHHH
Confidence 456677764 9999999999999999999999763
No 44
>COG0181 HemC Porphobilinogen deaminase [Coenzyme metabolism]
Probab=22.88 E-value=92 Score=28.73 Aligned_cols=26 Identities=23% Similarity=0.429 Sum_probs=20.9
Q ss_pred cccCCcccceeeEEEEccCCeEEEEE
Q 039855 101 KKVAGCATQVWLEVVMDERGRMRFRA 126 (198)
Q Consensus 101 n~V~GCqS~VWL~~~~~~dg~v~F~a 126 (198)
.+--|||.+|-.++..++++.++|+|
T Consensus 235 ~L~ggC~~PIg~~a~~~~~~~l~l~~ 260 (307)
T COG0181 235 ELEGGCQVPIGAYAELTGGGELRLRA 260 (307)
T ss_pred hhCCCCCCceEEEEEEcCCCeEEEEE
Confidence 45679999999999986566777776
No 45
>PF06126 Herpes_LAMP2: Herpesvirus Latent membrane protein 2; InterPro: IPR009304 This is a family of Kaposi's sarcoma-associated herpesvirus (HHV8) latent membrane protein.
Probab=21.71 E-value=53 Score=31.13 Aligned_cols=33 Identities=27% Similarity=0.344 Sum_probs=25.3
Q ss_pred HHhcCCCCCCcccccc-----------ccccCCcccceeeEEEE
Q 039855 84 DYAAVLPGLDESGRVQ-----------AKKVAGCATQVWLEVVM 116 (198)
Q Consensus 84 ~lgk~Lp~lpe~~rt~-----------~n~V~GCqS~VWL~~~~ 116 (198)
.+|+++||||+..+.. -.-|.||.|+|--.+|+
T Consensus 389 HL~~~~PPLP~~~~~~~Ri~S~~TD~~~~~~R~~~t~~~~~~Em 432 (497)
T PF06126_consen 389 HLARRLPPLPSRNVIHSRIPSSTTDMALSPVRVCNTEVTTQLEM 432 (497)
T ss_pred hHhhcCCCCCcccccceeccccccccccCcccccchhhhhHHHH
Confidence 5799999999987543 24679999998766554
No 46
>cd07484 Peptidases_S8_Thermitase_like Peptidase S8 family domain in Thermitase-like proteins. Thermitase is a non-specific, trypsin-related serine protease with a very high specific activity. It contains a subtilisin like domain. The tertiary structure of thermitase is similar to that of subtilisin BPN'. It contains a Asp/His/Ser catalytic triad. Members of the peptidases S8 (subtilisin and kexin) and S53 (sedolisin) clan include endopeptidases and exopeptidases. The S8 family has an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. Serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base. The S53 family contains a catalytic triad Glu/Asp/Ser with an additional acidic residue Asp in the oxyanion hole, similar to that of subtilisin. The serine residue here is the nucleophilic equivalent of the serine residue in the S8 family, while glutamic acid
Probab=21.19 E-value=89 Score=26.28 Aligned_cols=33 Identities=15% Similarity=0.006 Sum_probs=27.3
Q ss_pred eEEEEEeCCh-hhHHHHHHHHHHHhcCCChHHHhc
Q 039855 121 RMRFRADSDS-EISKGFCSCLIMVLDGAEPEEVLG 154 (198)
Q Consensus 121 ~v~F~aDSDA-~IvKGLlALLl~~lnG~tpeEIl~ 154 (198)
...+.+.|=| ++|-|++|++....- .+++||.+
T Consensus 217 ~~~~~GTS~Aap~vag~~Al~~~~~p-~t~~~i~~ 250 (260)
T cd07484 217 YAYMSGTSMATPHVAGVAALLYSQGP-LSASEVRD 250 (260)
T ss_pred EEEeeeHHHHHHHHHHHHHHHHhcCC-CCHHHHHH
Confidence 3566677764 999999999999888 99999876
No 47
>cd07479 Peptidases_S8_SKI-1_like Peptidase S8 family domain in SKI-1-like proteins. SKI-1 (type I membrane-bound subtilisin-kexin-isoenzyme) proteins are secretory Ca2+-dependent serine proteinases cleave at nonbasic residues: Thr, Leu, and Lys. SKI-1s play a critical role in the regulation of the synthesis and metabolism of cholesterol and fatty acid metabolism. Members of the peptidases S8 and S35 clan include endopeptidases, exopeptidases and also a tripeptidyl-peptidase. The S8 family has an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The S53 family contains a catalytic triad Glu/Asp/Ser. The stability of these enzymes may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme tem
Probab=20.76 E-value=90 Score=26.81 Aligned_cols=35 Identities=17% Similarity=0.188 Sum_probs=26.3
Q ss_pred CeEEEEEeCC-hhhHHHHHHHHHHHhc----CCChHHHhc
Q 039855 120 GRMRFRADSD-SEISKGFCSCLIMVLD----GAEPEEVLG 154 (198)
Q Consensus 120 g~v~F~aDSD-A~IvKGLlALLl~~ln----G~tpeEIl~ 154 (198)
+.-.|.+.|= +++|-|.+|||+..+- ..+|.+|.+
T Consensus 205 ~~~~~sGTS~AaP~VaG~aAll~s~~p~~~~~~~p~~vk~ 244 (255)
T cd07479 205 GCRALSGTSVASPVVAGAVALLLSTVPEKRDLINPASMKQ 244 (255)
T ss_pred CeEEeccHHHHHHHHHHHHHHHHHhCccccCCCCHHHHHH
Confidence 4455667776 4999999999998876 467776654
No 48
>PF10109 FluMu_gp41: Mu-like prophage FluMu protein gp41; InterPro: IPR019289 Members of this family of prokaryotic proteins include various Gp41 proteins and related sequences [].
Probab=20.07 E-value=97 Score=21.51 Aligned_cols=26 Identities=27% Similarity=0.456 Sum_probs=22.0
Q ss_pred HHHHHHhcCCChHHHhcCChhHHHhc
Q 039855 138 SCLIMVLDGAEPEEVLGFKTEDLTEM 163 (198)
Q Consensus 138 ALLl~~lnG~tpeEIl~~d~~~l~~l 163 (198)
.-++..+.|.++++|.+++..+|.++
T Consensus 48 ~~l~a~l~gl~~~~l~~L~~~D~~~l 73 (82)
T PF10109_consen 48 IALIARLTGLPPEDLDQLDARDYNRL 73 (82)
T ss_pred HHHHHHhcCCCHHHHHcCCHHHHHHH
Confidence 55678889999999999999888653
Done!