Query 013308
Match_columns 445
No_of_seqs 227 out of 419
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 02:32:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013308.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013308hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1348 Asparaginyl peptidases 100.0 8E-150 2E-154 1118.2 35.4 403 33-444 26-428 (477)
2 PF01650 Peptidase_C13: Peptid 100.0 8.1E-88 1.8E-92 658.2 23.5 256 60-330 1-256 (256)
3 KOG1349 Gpi-anchor transamidas 100.0 6.8E-63 1.5E-67 475.9 18.3 260 57-331 26-291 (309)
4 COG5206 GPI8 Glycosylphosphati 100.0 6.4E-55 1.4E-59 423.2 17.5 239 58-311 27-268 (382)
5 PF00656 Peptidase_C14: Caspas 99.1 1.1E-10 2.3E-15 110.2 7.5 182 60-302 1-230 (248)
6 KOG1546 Metacaspase involved i 98.4 4E-06 8.8E-11 85.2 12.4 131 54-227 58-211 (362)
7 smart00115 CASc Caspase, inter 96.9 0.025 5.4E-07 55.3 14.1 184 58-303 7-214 (241)
8 cd00032 CASc Caspase, interleu 96.6 0.058 1.3E-06 52.6 14.1 183 58-303 8-218 (243)
9 PF14538 Raptor_N: Raptor N-te 86.6 0.67 1.5E-05 43.0 3.4 72 138-228 71-152 (154)
10 PF12770 CHAT: CHAT domain 85.4 0.71 1.5E-05 44.8 3.1 67 133-223 123-201 (287)
11 PF01364 Peptidase_C25: Peptid 75.0 3.8 8.2E-05 42.3 4.4 103 170-302 239-351 (378)
12 KOG1017 Predicted uracil phosp 62.4 7 0.00015 38.5 3.0 23 79-101 204-226 (267)
13 COG4249 Uncharacterized protei 57.6 11 0.00025 39.8 3.9 60 167-230 132-207 (380)
14 COG2949 SanA Uncharacterized m 55.5 22 0.00048 35.2 5.1 39 58-99 92-130 (235)
15 PF11181 YflT: Heat induced st 41.9 34 0.00073 29.2 3.7 30 75-104 7-36 (103)
16 TIGR02855 spore_yabG sporulati 41.8 23 0.00049 36.3 3.0 101 113-235 103-221 (283)
17 PF03568 Peptidase_C50: Peptid 40.5 32 0.00068 36.2 3.9 43 168-227 308-350 (383)
18 PRK10834 vancomycin high tempe 39.2 28 0.00062 34.7 3.2 38 59-99 81-118 (239)
19 PF05582 Peptidase_U57: YabG p 32.9 35 0.00076 35.0 2.7 102 113-236 104-223 (287)
20 PF02698 DUF218: DUF218 domain 31.2 46 0.00099 29.5 2.9 35 63-99 41-75 (155)
21 cd06259 YdcF-like YdcF-like. Y 29.2 44 0.00095 29.5 2.4 38 60-99 35-72 (150)
22 KOG1552 Predicted alpha/beta h 25.4 65 0.0014 32.7 3.1 42 77-121 112-161 (258)
23 cd06183 cyt_b5_reduct_like Cyt 24.8 37 0.00081 31.8 1.3 35 59-100 200-234 (234)
24 COG5155 ESP1 Separase, a prote 24.7 42 0.00092 40.0 1.8 43 168-227 1489-1531(1622)
25 PRK10494 hypothetical protein; 24.1 65 0.0014 32.2 2.9 39 59-99 120-158 (259)
26 KOG3332 N-acetylglucosaminyl p 23.5 1.7E+02 0.0037 29.4 5.5 63 33-104 46-110 (247)
27 PRK10649 hypothetical protein; 20.6 59 0.0013 36.2 1.9 17 165-181 449-465 (577)
No 1
>KOG1348 consensus Asparaginyl peptidases [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.5e-150 Score=1118.22 Aligned_cols=403 Identities=66% Similarity=1.129 Sum_probs=385.1
Q ss_pred cCccccccccCCCCCCCcCCCCCCCCCeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCC
Q 013308 33 LPSEAYRFFHNGGGGAKVNDDDDSVGTRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENP 112 (445)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np 112 (445)
+|.-.++|++| .+.++.+|++||||||||+||||||||||||||||+||++|+|+||||||||||||+||+||
T Consensus 26 ~~~la~~~~~p-------~d~~ddggt~waVLVAGSngyyNYRHQADvcHAYqiLrkgGikeEnIvv~MYDDIA~~~~NP 98 (477)
T KOG1348|consen 26 LPLLASGFARP-------ADDDDDGGTRWAVLVAGSNGYYNYRHQADVCHAYQILRKGGIKEENIVVMMYDDIANNEENP 98 (477)
T ss_pred CccccccccCc-------CcCCccCceeEEEEEecCCcccchhhhhhHHHHHHHHHhcCCCchhEEEEEehhhhcCCCCC
Confidence 44444556665 23334448999999999999999999999999999999999999999999999999999999
Q ss_pred CCCeEeeCCCCCCccCCccccCCCCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCCCcCCCCCCCC
Q 013308 113 RPGVIINHPHGDDVYKGVPKDYTGEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSRYI 192 (445)
Q Consensus 113 ~pG~i~n~p~g~dvY~gv~iDY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g~l~fpd~~~L 192 (445)
+||+|||+|+|+|||+||+|||||++||++||++||+||+++++|||||||+|+|||||||||+||||||+|+||+++.|
T Consensus 99 rpG~iiN~P~G~DvY~GvpkDYtg~~Vt~~Nf~aVllGd~savkGGsGKV~~SgpnDhiFiYytDHG~pGvl~mP~~~~l 178 (477)
T KOG1348|consen 99 RPGVIINRPNGKDVYQGVPKDYTGEDVTPQNFLAVLLGDASAVKGGSGKVLKSGPNDHIFIYYTDHGGPGVLGMPTSPDL 178 (477)
T ss_pred CCceeecCCCchhhhcCCCCcccCCcCCHHHHHHHHhcccccccCCCceeeccCCCceEEEEEecCCCCceEecCCCcch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHcCCCceEEEEeecccccccccccCCCCCcEEEEeecCCCCccccccCCCCCCCCCCCccccchhhh
Q 013308 193 YADELIDVLKKKHASGNYKSLVFYLEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCPGEIPGPPPEYSTCLGDLY 272 (445)
Q Consensus 193 ~a~dL~~~L~~M~~~~~Ykkmvf~iEAC~SGSmf~~llp~~~nV~a~TASn~~ESSya~yc~~~~~~~~~~~~tcLgD~f 272 (445)
+++||+++|++||+.++|++||||+|||||||||+++||+++||||+||||+.||||+||||+++|+||+++.|||||+|
T Consensus 179 ~akdlnevL~kmhk~k~Y~~mvfYlEACESGSmfegiLp~~lnIYatTAaNa~ESSwgtycp~~~psppse~~tcLGDly 258 (477)
T KOG1348|consen 179 YAKDLNEVLKKMHKSKTYKKMVFYLEACESGSMFEGILPKNLNIYATTAANARESSWGTYCPGEYPSPPSEYSTCLGDLY 258 (477)
T ss_pred hHHHHHHHHHHHHhccchheEEEEeeeccCcchhhhhccCCCcEEEeecCCccccccceeCCCCCCCChhhcccccccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcccccccccccccHHHHHHHHHhhccCCCCCCCCceeecCCcccccchhhccccCCCCCCccccCCCCCCCCCCcc
Q 013308 273 SIAWMEDSDIHNLRTETLHQQYELVKTRTASYNSYGSHVMQYGDIGLSKNNLFTYLGTNPANDNYTFVDENSLRPASKAV 352 (445)
Q Consensus 273 S~~wme~~~~~~l~~eTl~~qf~~Vk~~t~~~~~~~Shv~~yGd~~~~~~~l~~f~g~~~~~~~~~~~~~~~~~~~~~~v 352 (445)
||+||||||.|||++|||+|||+.||+||+....+|||||||||..|++++|..|||.+|+++|++|. +.+..+++..+
T Consensus 259 SV~WmeDSd~hdL~kETL~qQYhlVK~rt~~s~s~gsHVmqyGd~~iske~l~lfqG~~pa~~nf~l~-~~s~~~~s~~~ 337 (477)
T KOG1348|consen 259 SVNWMEDSDVHDLKKETLHQQYHLVKKRTNTSYSYGSHVMQYGDKTISKEKLMLFQGMKPANENFTLP-ASSHKSPSGLT 337 (477)
T ss_pred eeeeeccCccccchHHHHHHHHHHHHHhcCCCCCCcceeeecCcchhhHHHHHHHcCCCcccCCCCCC-ccCcCCccccC
Confidence 99999999999999999999999999999998779999999999999999999999999999999887 55566678899
Q ss_pred CCcchhHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCcccccccCCCCCCCccCcchHH
Q 013308 353 NQRDADLLHFWDKYRKAPEGTPRKAEAQKQFFEAMSHRMHVDHSIKLIGKLLFGIEKGPEILNTVRPAGQPLVDDWGCLK 432 (445)
Q Consensus 353 ~~rd~~l~~l~~k~~~~~~~~~~~~~a~~~l~~~~~~R~~id~~~~~I~~~l~~~~~~~~~l~~~~~~g~~l~~~~~C~k 432 (445)
||||+||++||+||+++++++.++.++++||.+++.||+|||++|..|+.++||. .+..+|+.+|++|+||+|||+|+|
T Consensus 338 n~rD~~L~~l~~k~rka~dgs~~s~e~~k~i~~~~~hR~~id~sV~~I~~llf~~-~~~~~l~~vr~~g~Plvddw~C~k 416 (477)
T KOG1348|consen 338 NQRDAPLLHLWRKYRKANDGSAESRELQKEILRHKDHRKHIDKSVRLIVSLLFGS-EGEAVLNQVRSEGQPLVDDWDCLK 416 (477)
T ss_pred CCCCccHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc-chHHHHHHhhcCCCCccchHHHHH
Confidence 9999999999999999999999999999999999999999999999999999988 455789999999999999999999
Q ss_pred HHHHHHHhhcCC
Q 013308 433 SLVKFLIINSCI 444 (445)
Q Consensus 433 ~~v~~f~~~CG~ 444 (445)
++|+.|++|||+
T Consensus 417 ~~v~~F~~hCg~ 428 (477)
T KOG1348|consen 417 SAVRHFETHCGS 428 (477)
T ss_pred HHHHHHHHhcch
Confidence 999999999996
No 2
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=100.00 E-value=8.1e-88 Score=658.25 Aligned_cols=256 Identities=55% Similarity=0.962 Sum_probs=248.1
Q ss_pred eeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCCCCCccCCccccCCCCCC
Q 013308 60 RWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPHGDDVYKGVPKDYTGEDV 139 (445)
Q Consensus 60 ~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~g~dvY~gv~iDY~g~~V 139 (445)
+||||||||++|+|||||||+|||||+||++|+|+|||||||||||||||+||+||+|||+|+|.|+|+||+|||+|.+|
T Consensus 1 ~wAvlvagS~~~~NYRh~ad~~~~Y~~l~~~G~~~~~Iil~~~dd~a~~~~Np~~g~i~~~~~~~n~y~~~~iDY~g~~v 80 (256)
T PF01650_consen 1 NWAVLVAGSNGWFNYRHQADVCHAYQLLKRNGIPDENIILMMYDDIACNPRNPFPGKIFNDPDGTNVYKGVEIDYRGEDV 80 (256)
T ss_pred CEEEEEeccCCceeeeEehHHHHHHHHHHHcCCCCceEEEEecCCccchhhCCCCceEEeCCCcccccCCcccccccccc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCceEEEEeec
Q 013308 140 TVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKHASGNYKSLVFYLEA 219 (445)
Q Consensus 140 t~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~~~~~Ykkmvf~iEA 219 (445)
|+++|++||+|+++ + +++|||+|+++|+|||||+||||+|+|+||+.+.|++.||+++|++|+++++|||||||+||
T Consensus 81 ~~~~fl~vL~G~~~-~--~~~kvl~s~~~D~vfiy~~~HG~~~~l~~~~~~~l~~~~L~~~L~~m~~~~~y~~lv~~vea 157 (256)
T PF01650_consen 81 TPENFLNVLTGDKS-V--PSGKVLNSTENDNVFIYFTGHGGPGFLKFPDGEELTADDLADALDKMHEKKRYKKLVFVVEA 157 (256)
T ss_pred CHHHHHHHhcCCCC-C--CccccccCCCCCeEEEEEeccCCCCcccCCCcccccHHHHHHHHHHHHhhCCcceEEEEEec
Confidence 99999999999998 5 57899999999999999999999999999988899999999999999999999999999999
Q ss_pred ccccccccccCCCCCcEEEEeecCCCCccccccCCCCCCCCCCCccccchhhhhhhhcccccccccccccHHHHHHHHHh
Q 013308 220 CESGSIFEGLLPEGLNIYATTASNAEESSWGTYCPGEIPGPPPEYSTCLGDLYSIAWMEDSDIHNLRTETLHQQYELVKT 299 (445)
Q Consensus 220 C~SGSmf~~llp~~~nV~a~TASn~~ESSya~yc~~~~~~~~~~~~tcLgD~fS~~wme~~~~~~l~~eTl~~qf~~Vk~ 299 (445)
|||||||+. |++++||++||||+++|+||+|||+ +++++|||||+||++||++++.++++.+||.+||+.||+
T Consensus 158 C~SGs~~~~-L~~~~nv~~iTAa~~~e~Sy~~~~~------~~~~~~~l~d~fs~~~m~~~~~~~~~~~Tl~~~f~~v~~ 230 (256)
T PF01650_consen 158 CYSGSFFEG-LLKSPNVYVITAANADESSYGCYCS------DDSIGTYLGDAFSYNWMEDSDSHPLSEETLDDQFEYVKR 230 (256)
T ss_pred ccccchhhc-cCCCCCEEEEecCCccccccccccc------ccccccEeHHHHHHHhhhhhccCCccccCHHHHHHHHHH
Confidence 999999999 6789999999999999999999993 258999999999999999999999999999999999999
Q ss_pred hccCCCCCCCCceeecCCcccccchhhcccc
Q 013308 300 RTASYNSYGSHVMQYGDIGLSKNNLFTYLGT 330 (445)
Q Consensus 300 ~t~~~~~~~Shv~~yGd~~~~~~~l~~f~g~ 330 (445)
+|.. |||++|||.++.+++|++|||+
T Consensus 231 ~~~~-----shv~~~gd~s~~~~~v~~f~g~ 256 (256)
T PF01650_consen 231 KTTG-----SHVQQYGDPSIPQLPVSEFQGT 256 (256)
T ss_pred hccc-----chHHhcCCCCccccCHHHhcCC
Confidence 9975 9999999999999999999995
No 3
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.8e-63 Score=475.93 Aligned_cols=260 Identities=27% Similarity=0.490 Sum_probs=230.4
Q ss_pred CCCeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCC-CCCccC-CccccC
Q 013308 57 VGTRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPH-GDDVYK-GVPKDY 134 (445)
Q Consensus 57 ~~~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~-g~dvY~-gv~iDY 134 (445)
+.+||||||++||+|+||||.|||+.+|+.+|+.||||+|||+|++||.|||+|||+||.+|++.+ +.|+|. .|++||
T Consensus 26 htnNwAVLv~tSRfwfNYRH~aNvl~~YrsvKrlGipDsqIilmladd~acn~RN~~pg~Vy~n~~~~~nlygd~vevdy 105 (309)
T KOG1349|consen 26 HTNNWAVLVCTSRFWFNYRHVANVLSVYRSVKRLGIPDSQIILMLADDMACNSRNPRPGTVYNNENHALNLYGDDVEVDY 105 (309)
T ss_pred ccCceEEEEecchhhhhHHHHHHHHHHHHHHHHcCCCcccEEEEeccccccccCCCCCcceeccccccccccCCcceeec
Confidence 579999999999999999999999999999999999999999999999999999999999999985 689996 568999
Q ss_pred CCCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCceEE
Q 013308 135 TGEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKHASGNYKSLV 214 (445)
Q Consensus 135 ~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~~~~~Ykkmv 214 (445)
+|.+||+|||+++|+|+.+.-+|+|+|+ .+++.+|||||+|||||+|||+|||.++|+.+||++++++|++++||++++
T Consensus 106 rgyevtvEnflr~LTgR~~~~tprSKrl-ltDe~SNIlIYmtGHGgd~FlKFqd~eelts~dLadai~qm~e~~Ryneil 184 (309)
T KOG1349|consen 106 RGYEVTVENFLRVLTGRHPNNTPRSKRL-LTDEGSNILIYLTGHGGDGFLKFQDAEELTSDDLADAIQQMWEKKRYNEIL 184 (309)
T ss_pred ccchhHHHHHHHHHcCCCCCCCchhhhh-cccCCCcEEEEEccCCCccceecccHHHhhhHHHHHHHHHHHHhhhhceEE
Confidence 9999999999999999999999998774 589999999999999999999999999999999999999999999999999
Q ss_pred EEeecccccccccccCCCCCcEEEEeecCCCCccccccCCCCCCCCCCCccccchhhhhhhhccccccc-ccccccHHHH
Q 013308 215 FYLEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCPGEIPGPPPEYSTCLGDLYSIAWMEDSDIH-NLRTETLHQQ 293 (445)
Q Consensus 215 f~iEAC~SGSmf~~llp~~~nV~a~TASn~~ESSya~yc~~~~~~~~~~~~tcLgD~fS~~wme~~~~~-~l~~eTl~~q 293 (445)
|+||||+|.||++.+.. |||+|+++|.-+|+||+++.|+ +++.++-|.|++..++..++. .....||+++
T Consensus 185 ~miDTCQaasly~~~~s--PNVLav~SS~~ge~SySh~~d~-------~Igv~vIDrftyy~l~flek~~~~~~~~l~dl 255 (309)
T KOG1349|consen 185 FMIDTCQAASLYERFYS--PNVLAVASSLVGEPSYSHHSDS-------DIGVYVIDRFTYYTLEFLEKGIGAKNRTLQDL 255 (309)
T ss_pred EEeeccchHHHHHhhcC--CCeEEEeecccCCcccccCCCc-------ccceeeeccchHHHHHHHHhcccchhhhHHHH
Confidence 99999999999998754 5999999999999999999764 899999999998888776654 3334589999
Q ss_pred HHHHHhhccCCCCCCCCceeecCC---cccccchhhccccC
Q 013308 294 YELVKTRTASYNSYGSHVMQYGDI---GLSKNNLFTYLGTN 331 (445)
Q Consensus 294 f~~Vk~~t~~~~~~~Shv~~yGd~---~~~~~~l~~f~g~~ 331 (445)
|+..-.+.- +|||-.--|+ ..++-++.+|+|..
T Consensus 256 ~~s~~~~~~-----~St~gvr~dl~~r~~~~v~itDFFg~v 291 (309)
T KOG1349|consen 256 FDSCPKRLL-----GSTPGVRTDLYQRDPKDVLITDFFGSV 291 (309)
T ss_pred HHhCChhhh-----cCCcCcccccccCCcccceeeeecccc
Confidence 998876554 4776433333 23445667787753
No 4
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.4e-55 Score=423.25 Aligned_cols=239 Identities=25% Similarity=0.453 Sum_probs=214.0
Q ss_pred CCeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCC-CCCccC-CccccCC
Q 013308 58 GTRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPH-GDDVYK-GVPKDYT 135 (445)
Q Consensus 58 ~~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~-g~dvY~-gv~iDY~ 135 (445)
.+|||||+++||+|+||||.|||+.+|..+|+.||||+|||+|.|||.|||.||-+||.+||+.+ +.++|. .++|||+
T Consensus 27 tnNwAvLlstSRfwfNYRHmANVl~~Yr~vkrlGipDsQIilm~~dd~acnsRnlfpgsvf~N~Dra~dlyge~~eidY~ 106 (382)
T COG5206 27 TNNWAVLLSTSRFWFNYRHMANVLVFYRVVKRLGIPDSQIILMSYDDQACNSRNLFPGSVFNNSDRAGDLYGEDSEIDYS 106 (382)
T ss_pred CCceEEEEecccceeehhhhhhHHHHHHHHHHcCCCcceEEEEechhhhhhhcccCCcccccCcccccceeCcccccccc
Confidence 69999999999999999999999999999999999999999999999999999999999999877 567774 5789999
Q ss_pred CCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCceEEE
Q 013308 136 GEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKHASGNYKSLVF 215 (445)
Q Consensus 136 g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~~~~~Ykkmvf 215 (445)
|.+||+++|.+.|+.+..+-+|.|++ +..++++|||||++||||++||+|++.++++.+||++++.+|+++|||++++|
T Consensus 107 gyevTve~firLLt~r~~en~p~sKr-lltdE~SNIfIYmtGHGgd~FlKFqdaeemtseDladai~ql~~~kRyNeIlf 185 (382)
T COG5206 107 GYEVTVEVFIRLLTARSGENHPKSKR-LLTDESSNIFIYMTGHGGDAFLKFQDAEEMTSEDLADAISQLAAKKRYNEILF 185 (382)
T ss_pred cccchHHHHHHHHHhhccCCChhhhh-hcccccCcEEEEEccCCCccceecccHHHhhhHHHHHHHHHHHHhhhhceEEE
Confidence 99999999999999888877777765 55789999999999999999999999999999999999999999999999999
Q ss_pred EeecccccccccccCCCCCcEEEEeecCCCCccccccCCCCCCCCCCCccccchhhhhhhhccccccc-ccccccHHHHH
Q 013308 216 YLEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCPGEIPGPPPEYSTCLGDLYSIAWMEDSDIH-NLRTETLHQQY 294 (445)
Q Consensus 216 ~iEAC~SGSmf~~llp~~~nV~a~TASn~~ESSya~yc~~~~~~~~~~~~tcLgD~fS~~wme~~~~~-~l~~eTl~~qf 294 (445)
+||||++.+|++.... +||+|+.+|.-++|||+++.+. +++.-.-|.|++.+++..+.- -.++-||++++
T Consensus 186 miDTCQAnaly~k~ys--PNvLavgsSeig~ssyShhsd~-------~IgvaVIDrFty~~l~fle~id~~skltlqDL~ 256 (382)
T COG5206 186 MIDTCQANALYDKSYS--PNVLAVGSSEIGQSSYSHHSDS-------LIGVAVIDRFTYFFLKFLEKIDIGSKLTLQDLL 256 (382)
T ss_pred EeeccccchhhhhccC--CceEEEeccccCCccccccchh-------hhhHHHhhcchHHHHHHHhhcCcCCeeEHHHHH
Confidence 9999999999998754 5999999999999999999874 677777788888777666553 34678999988
Q ss_pred HHHHhhccCCCCCCCCc
Q 013308 295 ELVKTRTASYNSYGSHV 311 (445)
Q Consensus 295 ~~Vk~~t~~~~~~~Shv 311 (445)
...-.+- .+|||
T Consensus 257 ~s~n~e~-----ihS~~ 268 (382)
T COG5206 257 ASLNKEP-----IHSHV 268 (382)
T ss_pred HhcCccc-----ccCCC
Confidence 7653322 56888
No 5
>PF00656 Peptidase_C14: Caspase domain; InterPro: IPR011600 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences represent the p20 (20kDa) and p10 (10kDa) subunits of caspases, which together form the catalytic domain of the caspase and are derived from the p45 (45 kDa) precursor (IPR002398 from INTERPRO) []. Caspases (Cysteine-dependent ASPartyl-specific proteASE) are cysteine peptidases that belong to the MEROPS peptidase family C14 (caspase family, clan CD) based on the architecture of their catalytic dyad or triad []. Caspases are tightly regulated proteins that require zymogen activation to become active, and once active can be regulated by caspase inhibitors. Activated caspases act as cysteine proteases, using the sulphydryl group of a cysteine side chain for catalysing peptide bond cleavage at aspartyl residues in their substrates. The catalytic cysteine and histidine residues are on the p20 subunit after cleavage of the p45 precursor. Caspases are mainly involved in mediating cell death (apoptosis) [, , ]. They have two main roles within the apoptosis cascade: as initiators that trigger the cell death process, and as effectors of the process itself. Caspase-mediated apoptosis follows two main pathways, one extrinsic and the other intrinsic or mitochondrial-mediated. The extrinsic pathway involves the stimulation of various TNF (tumour necrosis factor) cell surface receptors on cells targeted to die by various TNF cytokines that are produced by cells such as cytotoxic T cells. The activated receptor transmits the signal to the cytoplasm by recruiting FADD, which forms a death-inducing signalling complex (DISC) with caspase-8. The subsequent activation of caspase-8 initiates the apoptosis cascade involving caspases 3, 4, 6, 7, 9 and 10. The intrinsic pathway arises from signals that originate within the cell as a consequence of cellular stress or DNA damage. The stimulation or inhibition of different Bcl-2 family receptors results in the leakage of cytochrome c from the mitochondria, and the formation of an apoptosome composed of cytochrome c, Apaf1 and caspase-9. The subsequent activation of caspase-9 initiates the apoptosis cascade involving caspases 3 and 7, among others. At the end of the cascade, caspases act on a variety of signal transduction proteins, cytoskeletal and nuclear proteins, chromatin-modifying proteins, DNA repair proteins and endonucleases that destroy the cell by disintegrating its contents, including its DNA. The different caspases have different domain architectures depending upon where they fit into the apoptosis cascades, however they all carry the catalytic p10 and p20 subunits. Caspases can have roles other than in apoptosis, such as caspase-1 (interleukin-1 beta convertase) (3.4.22.36 from EC), which is involved in the inflammatory process. The activation of apoptosis can sometimes lead to caspase-1 activation, providing a link between apoptosis and inflammation, such as during the targeting of infected cells. Caspases may also be involved in cell differentiation [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1M72_C 2NN3_C 3V4L_A 3IBF_B 2QLF_D 2QLB_C 3IBC_B 2QL9_A 3R5K_B 3H1P_A ....
Probab=99.13 E-value=1.1e-10 Score=110.15 Aligned_cols=182 Identities=23% Similarity=0.273 Sum_probs=124.9
Q ss_pred eeEEEEeccCCC-CCchh--hhHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCCCCCccCCccccCCC
Q 013308 60 RWAVLLAGSNGF-WNYRH--QADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPHGDDVYKGVPKDYTG 136 (445)
Q Consensus 60 ~wAVlVagS~gw-~NYRH--qaDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~g~dvY~gv~iDY~g 136 (445)
+|||||+-+.+= .+-++ ..|+-.+.+.|++.|++.++| ++ ++
T Consensus 1 ~~AliIg~~~y~~~~~L~~~~~D~~~~~~~L~~~gf~~~~~-l~--~~-------------------------------- 45 (248)
T PF00656_consen 1 KRALIIGVNYYQNPPPLPGAVNDAEAMAEALEKLGFDVENI-LI--DN-------------------------------- 45 (248)
T ss_dssp EEEEEEEESSTSSTCHCTTHHHHHHHHHHHHHHTTEEEEEE-EE--ES--------------------------------
T ss_pred CEEEEEEeeCCCCCCCCCCHHHHHHHHHHHHHHcCCceeec-cc--cc--------------------------------
Confidence 599999998751 13333 378999999999999999999 33 21
Q ss_pred CCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCC--CC----cCCCCCCCCCHHH---HHHHHHHHHHc
Q 013308 137 EDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGP--GV----LGMPTSRYIYADE---LIDVLKKKHAS 207 (445)
Q Consensus 137 ~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~--g~----l~fpd~~~L~a~d---L~~~L~~M~~~ 207 (445)
+|.+++...|+--. -...++|.++|||+|||.. +. +.-.++..+..+. +.+.|..+..+
T Consensus 46 --~t~~~i~~~l~~l~----------~~~~~~D~~~~yfsGHG~~~~~~~~~~~~~~d~~~~~~d~~~~~~~~l~~~~~~ 113 (248)
T PF00656_consen 46 --ATRANILKALRELL----------QRAQPGDSVVFYFSGHGIQVDGEGGDEDSGYDGYLLPLDANLILDDELRDLLCK 113 (248)
T ss_dssp --SSHHHHHHHHHHHH----------TSGGTCSEEEEEEESEEETETTCCSTEEEETSSEEEEHHHHEEHHHHTSTTTTG
T ss_pred --hHHHHHHHHHhhhh----------ccCCCCCeeEEEEeccccccCCccCcccccccceeeecchhhhHHHHHhhhhhh
Confidence 68899999888211 1123889999999999965 11 1111333344444 67777776555
Q ss_pred C-CCc-eEEEEeecccccccccccC----------------------------CCCCcEEEEeecCCCCccccccCCCCC
Q 013308 208 G-NYK-SLVFYLEACESGSIFEGLL----------------------------PEGLNIYATTASNAEESSWGTYCPGEI 257 (445)
Q Consensus 208 ~-~Yk-kmvf~iEAC~SGSmf~~ll----------------------------p~~~nV~a~TASn~~ESSya~yc~~~~ 257 (445)
. .-+ + +|++|+|+||.+..... +...++++++|+.++|.||.. ++
T Consensus 114 ~~~~~~k-~~ilD~C~sg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~as~~~~~s~e~--~~-- 188 (248)
T PF00656_consen 114 SLPKKPK-LFILDCCRSGGFIDGLSSSSGESSKREERKLSSSIPPEDPNRSDVPSPSGFIVLSASRPGQTSYED--SP-- 188 (248)
T ss_dssp GGTTS-E-EEEEESESSSBTBCEEEEEESSSTSS-EECHCCCCCCSSCCSEEEETTTSEEEEESSSTTBCEEEE--CT--
T ss_pred hccCCcc-EEeeccccCCccCCccccccccccccccccccccccccccccccccCCCCcEEEEeccccceeecc--cC--
Confidence 2 122 4 99999999999765311 122389999999999999987 21
Q ss_pred CCCCCCccccchhhhhhhhccccccc------ccccccHHHHHHHHHhhcc
Q 013308 258 PGPPPEYSTCLGDLYSIAWMEDSDIH------NLRTETLHQQYELVKTRTA 302 (445)
Q Consensus 258 ~~~~~~~~tcLgD~fS~~wme~~~~~------~l~~eTl~~qf~~Vk~~t~ 302 (445)
-=|.+|+.++++-...+ .-...+|.+.+..|++++.
T Consensus 189 ---------~~~g~ft~~L~~~L~~~~~~~~~~~~~~~l~~~~~~v~~~~~ 230 (248)
T PF00656_consen 189 ---------GSGGLFTYALLEALKGNAADDPNQSWDELLEELLTEVNQKVA 230 (248)
T ss_dssp ---------TTEEHHHHHHHHHHHHHTTTSTTCCTTSBHHHHHHHHHHHHH
T ss_pred ---------ccCHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHhHCC
Confidence 12467888888765322 2234789999999999884
No 6
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=4e-06 Score=85.21 Aligned_cols=131 Identities=22% Similarity=0.328 Sum_probs=89.7
Q ss_pred CCCCCCeeEEEEeccCCCCCchhh-----hHHHHHHHHH-HhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCCCCCcc
Q 013308 54 DDSVGTRWAVLLAGSNGFWNYRHQ-----ADICHAYQLL-RKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPHGDDVY 127 (445)
Q Consensus 54 ~~~~~~~wAVlVagS~gw~NYRHq-----aDv~~~YqiL-~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~g~dvY 127 (445)
..-.+++-||||+-+ |-|=+++ .||-.|.+.| .+.||+.|+|++|.-+| ++|.
T Consensus 58 ~~~~gkrrAvLiGIN--Y~gTk~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~-----~s~~-------------- 116 (362)
T KOG1546|consen 58 PQMAGKRRAVLIGIN--YPGTKNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTD-----ESPV-------------- 116 (362)
T ss_pred ccccccceEEEEeec--CCCcHHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCC-----Cccc--------------
Confidence 445588999999863 3333333 5889999977 67999999999887443 2221
Q ss_pred CCccccCCCCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCC-------CCcCCC------C----CC
Q 013308 128 KGVPKDYTGEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGP-------GVLGMP------T----SR 190 (445)
Q Consensus 128 ~gv~iDY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~-------g~l~fp------d----~~ 190 (445)
.--|.+|+.+.|+- . |....++|-+|+=|||||+. ..-+|- | +.
T Consensus 117 ---------~~PT~~Nir~Al~w---L-------V~~aq~gD~LvfHYSGHGtr~~~~~gDe~dG~DE~I~P~D~~t~G~ 177 (362)
T KOG1546|consen 117 ---------RIPTGKNIRRALRW---L-------VESAQPGDSLVFHYSGHGTRQPDTNGDEVDGYDETIVPCDHNTQGP 177 (362)
T ss_pred ---------ccCcHHHHHHHHHH---H-------HhcCCCCCEEEEEecCCCCcCCCCCCCCCCCCcceeeccccccccc
Confidence 12366788888872 1 22345789999999999983 122221 1 12
Q ss_pred CCCHHHHHHHHHHHHHcCCCceEEEEeeccccccccc
Q 013308 191 YIYADELIDVLKKKHASGNYKSLVFYLEACESGSIFE 227 (445)
Q Consensus 191 ~L~a~dL~~~L~~M~~~~~Ykkmvf~iEAC~SGSmf~ 227 (445)
.|..+++....+.+-+ =-++-+++|+|+||++.+
T Consensus 178 iIdDe~~r~lV~plp~---G~~lt~I~DSCHSGgliD 211 (362)
T KOG1546|consen 178 IIDDEIFRILVRPLPK---GCKLTAISDSCHSGGLID 211 (362)
T ss_pred ccchHHHHHHHhccCC---CceEEEEeecccCCCccc
Confidence 5667777777776632 358899999999999988
No 7
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=96.89 E-value=0.025 Score=55.34 Aligned_cols=184 Identities=17% Similarity=0.234 Sum_probs=110.7
Q ss_pred CCeeEEEEeccCCCC-Cchhh--hHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCCCCCccCCccccC
Q 013308 58 GTRWAVLLAGSNGFW-NYRHQ--ADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPHGDDVYKGVPKDY 134 (445)
Q Consensus 58 ~~~wAVlVagS~gw~-NYRHq--aDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~g~dvY~gv~iDY 134 (445)
....|+||+-+++-. .-|.- .|+-.+-++|++.||. +.+ +
T Consensus 7 p~g~alII~n~~f~~~~~r~g~~~D~~~l~~~f~~lgF~---V~~--~-------------------------------- 49 (241)
T smart00115 7 PRGLALIINNENFHSLPRRNGTDVDAENLTELFQSLGYE---VHV--K-------------------------------- 49 (241)
T ss_pred CCcEEEEEECccCCCCcCCCCcHHHHHHHHHHHHHCCCE---EEE--e--------------------------------
Confidence 478999999887521 11222 3899999999999992 222 1
Q ss_pred CCCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHH-HcCCCceE
Q 013308 135 TGEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKH-ASGNYKSL 213 (445)
Q Consensus 135 ~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~-~~~~Ykkm 213 (445)
.++|.+.+.+.|..- . .+ .+-...|-+++||.+||+.|+|.-.|+..+.-++|.+.|..-. ..-.-|=-
T Consensus 50 --~dlt~~em~~~l~~~-~------~~-~~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~c~~L~~kPK 119 (241)
T smart00115 50 --NNLTAEEMLEELKEF-A------ER-PEHSDSDSFVCVLLSHGEEGGIYGTDHSPLPLDEIFSLFNGDNCPSLAGKPK 119 (241)
T ss_pred --cCCCHHHHHHHHHHH-H------hc-cccCCCCEEEEEEcCCCCCCeEEEecCCEEEHHHHHHhccccCChhhcCCCc
Confidence 245777788887621 1 11 1223577899999999999988777776677777766663211 11123446
Q ss_pred EEEeecccccccccc--------------------cCCCCCcEEEEeecCCCCccccccCCCCCCCCCCCccccchhhhh
Q 013308 214 VFYLEACESGSIFEG--------------------LLPEGLNIYATTASNAEESSWGTYCPGEIPGPPPEYSTCLGDLYS 273 (445)
Q Consensus 214 vf~iEAC~SGSmf~~--------------------llp~~~nV~a~TASn~~ESSya~yc~~~~~~~~~~~~tcLgD~fS 273 (445)
+|+|+||...-+-.+ -+|...++++.=|+.++.-||-. +.. |-+|.
T Consensus 120 lffiqACRg~~~~~g~~~~~~~~~~~~~~~~~~~~~~p~~~D~li~ysT~pG~va~r~----------~~~----gS~fi 185 (241)
T smart00115 120 LFFIQACRGDELDGGVPVEDDVDDPPTEFEDDAIYKIPVEADFLAAYSTTPGYVSWRN----------PTR----GSWFI 185 (241)
T ss_pred EEEEeCCCCCCCCCCeecccccccccccccccccccCCCcCcEEEEEeCCCCeEeecC----------CCC----CchHH
Confidence 899999965422111 12333356666666666555532 011 23333
Q ss_pred hhhcccccccccccccHHHHHHHHHhhccC
Q 013308 274 IAWMEDSDIHNLRTETLHQQYELVKTRTAS 303 (445)
Q Consensus 274 ~~wme~~~~~~l~~eTl~~qf~~Vk~~t~~ 303 (445)
-...+-...+ -..+.|.+.|..|.+++..
T Consensus 186 ~~L~~~l~~~-~~~~~l~~ilt~V~~~V~~ 214 (241)
T smart00115 186 QSLCQVLKEY-ARSLDLLDILTEVNRKVAV 214 (241)
T ss_pred HHHHHHHHHc-CCCCCHHHHHHHHHHHHhh
Confidence 3333322221 2457899999999998874
No 8
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=96.58 E-value=0.058 Score=52.63 Aligned_cols=183 Identities=16% Similarity=0.202 Sum_probs=113.2
Q ss_pred CCeeEEEEeccCCCC--Cchh--hhHHHHHHHHHHhCCCCCCCEEEEeccccccCCCCCCCCeEeeCCCCCCccCCcccc
Q 013308 58 GTRWAVLLAGSNGFW--NYRH--QADICHAYQLLRKGGLKDENIIVFMYDDIAFNEENPRPGVIINHPHGDDVYKGVPKD 133 (445)
Q Consensus 58 ~~~wAVlVagS~gw~--NYRH--qaDv~~~YqiL~~~Gi~denIIvmmyDDiA~n~~Np~pG~i~n~p~g~dvY~gv~iD 133 (445)
...+|+||+-+++-. .=|. ..|+-.+-.+|++.|| .+.+.
T Consensus 8 ~~g~aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~~lgF---~V~~~--------------------------------- 51 (243)
T cd00032 8 RRGLALIINNENFDKGLKDRDGTDVDAENLTKLFESLGY---EVEVK--------------------------------- 51 (243)
T ss_pred CCCEEEEEechhcCCCCCCCCChHHHHHHHHHHHHHCCC---EEEEe---------------------------------
Confidence 578999999887643 1232 3689999999999999 22221
Q ss_pred CCCCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHH-HcCCCce
Q 013308 134 YTGEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKH-ASGNYKS 212 (445)
Q Consensus 134 Y~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~-~~~~Ykk 212 (445)
.++|.+.+...|..-. .+ +....|-+++||.+||..+.|.--|...+.-++|.+.|..-. .+-.-|=
T Consensus 52 ---~nlt~~~~~~~l~~f~-------~~--~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~~~sl~~kP 119 (243)
T cd00032 52 ---NNLTAEEILEELKEFA-------SP--DHSDSDSFVCVILSHGEEGGIYGTDGDVVPIDEITSLFNGDNCPSLAGKP 119 (243)
T ss_pred ---CCCCHHHHHHHHHHHH-------hc--cCCCCCeeEEEECCCCCCCEEEEecCcEEEHHHHHHhhccCCCccccCCC
Confidence 2457777878776311 01 224567889999999999988766755577777766665211 1123455
Q ss_pred EEEEeecccccccccc-----------------------cCCCCCcEEEEeecCCCCccccccCCCCCCCCCCCccccch
Q 013308 213 LVFYLEACESGSIFEG-----------------------LLPEGLNIYATTASNAEESSWGTYCPGEIPGPPPEYSTCLG 269 (445)
Q Consensus 213 mvf~iEAC~SGSmf~~-----------------------llp~~~nV~a~TASn~~ESSya~yc~~~~~~~~~~~~tcLg 269 (445)
-+|+|+||...-+-.+ ..|...++++.=|+.++.-||-.- . -|
T Consensus 120 Kl~~iqACRg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~d~lv~ysT~pG~~a~r~~----------~----~g 185 (243)
T cd00032 120 KLFFIQACRGDELDLGVEVDSGADEPPDVETEAEDDAVQTIPVEADFLVAYSTVPGYVSWRNT----------K----KG 185 (243)
T ss_pred cEEEEECCCCCcCCCceeccCccccccccccccccccccCCCCcccEEEEecCCCCeEeecCC----------C----CC
Confidence 6899999987544221 123334666666666666655331 1 12
Q ss_pred hhhhhhhcccccccccccccHHHHHHHHHhhccC
Q 013308 270 DLYSIAWMEDSDIHNLRTETLHQQYELVKTRTAS 303 (445)
Q Consensus 270 D~fS~~wme~~~~~~l~~eTl~~qf~~Vk~~t~~ 303 (445)
-+|.-.+.+... +.-..+.|.+.+..|.+++..
T Consensus 186 S~fi~~l~~~l~-~~~~~~~l~~il~~V~~~V~~ 218 (243)
T cd00032 186 SWFIQSLCQVLR-KYAHSLDLLDILTKVNRKVAE 218 (243)
T ss_pred CEeHHHHHHHHH-HhCCCCcHHHHHHHHHHHHhh
Confidence 233333332221 122356899999999998875
No 9
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=86.60 E-value=0.67 Score=43.01 Aligned_cols=72 Identities=18% Similarity=0.355 Sum_probs=51.6
Q ss_pred CCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCC------CcCCCCCC----CCCHHHHHHHHHHHHHc
Q 013308 138 DVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPG------VLGMPTSR----YIYADELIDVLKKKHAS 207 (445)
Q Consensus 138 ~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g------~l~fpd~~----~L~a~dL~~~L~~M~~~ 207 (445)
+.|++.+.+.+..-. +.-+++.|.+.|.|||-|. +..|...- .++-.||.+.+..
T Consensus 71 dpt~e~~~~~~~~~R-----------~~a~~~RvLFHYnGhGvP~Pt~~GeIw~f~~~~tqyip~si~dL~~~lg~---- 135 (154)
T PF14538_consen 71 DPTVEDLKRLCQSLR-----------RNAKDERVLFHYNGHGVPRPTENGEIWVFNKNYTQYIPLSIYDLQSWLGS---- 135 (154)
T ss_pred CCCHHHHHHHHHHHH-----------hhCCCceEEEEECCCCCCCCCCCCeEEEEcCCCCcceEEEHHHHHHhcCC----
Confidence 668888888777321 1234689999999999984 34443321 3777777766654
Q ss_pred CCCceEEEEeecccccccccc
Q 013308 208 GNYKSLVFYLEACESGSIFEG 228 (445)
Q Consensus 208 ~~Ykkmvf~iEAC~SGSmf~~ 228 (445)
-.+|+.|...||++++.
T Consensus 136 ----Psi~V~DC~~AG~il~~ 152 (154)
T PF14538_consen 136 ----PSIYVFDCSNAGSILNA 152 (154)
T ss_pred ----CEEEEEECCcHHHHHHh
Confidence 78999999999998764
No 10
>PF12770 CHAT: CHAT domain
Probab=85.41 E-value=0.71 Score=44.80 Aligned_cols=67 Identities=25% Similarity=0.437 Sum_probs=45.6
Q ss_pred cCCCCCCCHHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCCCC-------CcCCC-----CCCCCCHHHHHHH
Q 013308 133 DYTGEDVTVENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGGPG-------VLGMP-----TSRYIYADELIDV 200 (445)
Q Consensus 133 DY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg~g-------~l~fp-----d~~~L~a~dL~~~ 200 (445)
-..+.+.|.++++..|... ++ =.|+|++||... .|.+. ++..|++.||..
T Consensus 123 ~~~~~~at~~~l~~~l~~~--------------~~---~ilH~a~Hg~~~~~~~~~~~l~l~~~~~~~~~~l~~~~l~~- 184 (287)
T PF12770_consen 123 VLVGPEATKDALLEALERR--------------GP---DILHFAGHGTFDPDPPDQSGLVLSDESGQEDGLLSAEELAQ- 184 (287)
T ss_pred EeeccCCCHHHHHhhhccC--------------CC---CEEEEEcccccCCCCCCCCEEEEeccCCCCCcccCHHHHHh-
Confidence 3566777888888887311 11 268999999877 67775 345699999977
Q ss_pred HHHHHHcCCCceEEEEeeccccc
Q 013308 201 LKKKHASGNYKSLVFYLEACESG 223 (445)
Q Consensus 201 L~~M~~~~~Ykkmvf~iEAC~SG 223 (445)
++ + .+ -+ ++++-||+||
T Consensus 185 l~-l--~~--~~-lVvLsaC~s~ 201 (287)
T PF12770_consen 185 LD-L--RG--PR-LVVLSACESA 201 (287)
T ss_pred hc-C--CC--CC-EEEecCcCCc
Confidence 21 1 11 23 6689999999
No 11
>PF01364 Peptidase_C25: Peptidase family C25 This family belongs to family C25 of the peptidase classification.; InterPro: IPR001769 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C25 (gingipain, clan CD). The protein fold of the peptidase domain for members of this entry resembles that of caspase 1, the type example for clan CD. This is a protein family found only in the bacteria. Porphyromonas gingivalis (Bacteroides gingivalis) a Gram-negative anaerobic bacterial species strongly associated with adult periodontitis. One of its distinguishing characteristics and putative virulence properties is the ability to agglutinate erythrocytes []. It is a highly proteolytic organism which metabolises small peptides and amino acids. Indirect evidence suggests that the proteases produced by this microorganism constitute an important virulence factor []. Protease-encoding genes have been shown to contain multiple copies of repeated nucleotide sequences. These conserved sequences have also been found in haemagglutinin genes [].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1CVR_A.
Probab=74.97 E-value=3.8 Score=42.34 Aligned_cols=103 Identities=20% Similarity=0.204 Sum_probs=48.0
Q ss_pred eEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCceEEEEeeccccccc-ccc--c-------CCCCCcEEEE
Q 013308 170 HIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKHASGNYKSLVFYLEACESGSI-FEG--L-------LPEGLNIYAT 239 (445)
Q Consensus 170 ~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~~~~~Ykkmvf~iEAC~SGSm-f~~--l-------lp~~~nV~a~ 239 (445)
..||.|.|||++... ..+.|+.+|+. .+.. ..|--|++.-||+.|.+ ... . .|++--|-.+
T Consensus 239 ~~~v~y~GHG~~~~w---~~~~~~~~d~~----~l~N--~~~~p~~~s~~C~~g~fd~~~~~sl~E~~v~~~~gGAia~i 309 (378)
T PF01364_consen 239 AGFVNYFGHGSPTSW---ADEDFTSSDIS----NLNN--KNKLPVVISAACYTGNFDDPDNPSLGEALVLNPNGGAIAFI 309 (378)
T ss_dssp -SEEEEES-B-SSBB---TTT--BTTTGG----G-----TT---EEEEESSSTT-TTSSS---HHHHHHTTEE-S-SEEE
T ss_pred CeEEEEecCCchhhc---ccCcccHhHHH----HhcC--CCCceEEEEeECCCcCCCCCCCCcHHHHheECCCCcEEEEE
Confidence 368899999998855 22224444432 2222 23566788889999998 333 1 1222234444
Q ss_pred eecCCCCccccccCCCCCCCCCCCccccchhhhhhhhcccccccccccccHHHHHHHHHhhcc
Q 013308 240 TASNAEESSWGTYCPGEIPGPPPEYSTCLGDLYSIAWMEDSDIHNLRTETLHQQYELVKTRTA 302 (445)
Q Consensus 240 TASn~~ESSya~yc~~~~~~~~~~~~tcLgD~fS~~wme~~~~~~l~~eTl~~qf~~Vk~~t~ 302 (445)
+++. .+|..+ ++.|+..+.+...... ..+|.+.+...|....
T Consensus 310 g~s~---~~~~~~----------------~~~~~~~~~~~l~~~~--~~~lG~a~~~a~~~~~ 351 (378)
T PF01364_consen 310 GSSR---VSYASP----------------NDRLNRGFYEALFNSN--MDTLGEALRQAKNYYL 351 (378)
T ss_dssp EESS-----SSHH----------------HHHHHHHHTT-STT------BHHHHHHHHHHHHH
T ss_pred ecce---eEecch----------------HHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHH
Confidence 5443 444331 3555555555433221 1288888888877554
No 12
>KOG1017 consensus Predicted uracil phosphoribosyltransferase [General function prediction only]
Probab=62.35 E-value=7 Score=38.47 Aligned_cols=23 Identities=35% Similarity=0.746 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhCCCCCCCEEEEe
Q 013308 79 DICHAYQLLRKGGLKDENIIVFM 101 (445)
Q Consensus 79 Dv~~~YqiL~~~Gi~denIIvmm 101 (445)
-||.|-..|+.+|+||++||+..
T Consensus 204 TV~~Av~VL~EhgVp~s~IiL~s 226 (267)
T KOG1017|consen 204 TVCKAVEVLKEHGVPDSNIILVS 226 (267)
T ss_pred cHHHHHHHHHHcCCCcccEEEEE
Confidence 59999999999999999999874
No 13
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=57.58 E-value=11 Score=39.83 Aligned_cols=60 Identities=27% Similarity=0.470 Sum_probs=38.2
Q ss_pred CCCeEEEEeecCCCCC-------CcCCCCC---------CCCCHHHHHHHHHHHHHcCCCceEEEEeecccccccccccC
Q 013308 167 PNDHIFIFYSDHGGPG-------VLGMPTS---------RYIYADELIDVLKKKHASGNYKSLVFYLEACESGSIFEGLL 230 (445)
Q Consensus 167 ~~D~VFIY~tdHGg~g-------~l~fpd~---------~~L~a~dL~~~L~~M~~~~~Ykkmvf~iEAC~SGSmf~~ll 230 (445)
+.|++++||+|||... ++.|-.. .-+... .....+|. ..-++-+.++++|.+|.+|....
T Consensus 132 ~~d~~~~~fsG~g~~~~~d~~~~lia~~t~p~~~a~~~~~~~s~~---~~~~~~~~-~~~~~ql~~~d~~~~~~~~~~~~ 207 (380)
T COG4249 132 PADTILFFFSGHGATPGADGRAYLIAFDTRPGAVAYDGEGGISPY---SVAQALHL-SEPGNQLVDLDACVRGDVFKATA 207 (380)
T ss_pred hhhhhhheeeccccccCCCCceeEEeecCChhhhcccCCCcccHH---HHHHHHHh-ccCCceeehhhhhcchhhhcccc
Confidence 4799999999999862 2222111 112222 23333333 34566788999999999998764
No 14
>COG2949 SanA Uncharacterized membrane protein [Function unknown]
Probab=55.46 E-value=22 Score=35.23 Aligned_cols=39 Identities=26% Similarity=0.335 Sum_probs=21.7
Q ss_pred CCeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEE
Q 013308 58 GTRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIV 99 (445)
Q Consensus 58 ~~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIv 99 (445)
|+---+|++|.|+=-+|- .+-.|-+.|++.|+|.++|.+
T Consensus 92 gKV~~LLlSGDN~~~sYn---Ep~tM~kdL~~~GVp~~~i~l 130 (235)
T COG2949 92 GKVNYLLLSGDNATVSYN---EPRTMRKDLIAAGVPAKNIFL 130 (235)
T ss_pred CCeeEEEEecCCCccccc---chHHHHHHHHHcCCCHHHeee
Confidence 344445555554433331 355666667777777777765
No 15
>PF11181 YflT: Heat induced stress protein YflT
Probab=41.94 E-value=34 Score=29.23 Aligned_cols=30 Identities=20% Similarity=0.359 Sum_probs=25.6
Q ss_pred hhhhHHHHHHHHHHhCCCCCCCEEEEeccc
Q 013308 75 RHQADICHAYQLLRKGGLKDENIIVFMYDD 104 (445)
Q Consensus 75 RHqaDv~~~YqiL~~~Gi~denIIvmmyDD 104 (445)
.=+..+.++-+-|++.|+..++|.|+..|+
T Consensus 7 ~~~~E~~~~I~~L~~~Gy~~ddI~Vva~d~ 36 (103)
T PF11181_consen 7 DNEEEALSAIEELKAQGYSEDDIYVVAKDK 36 (103)
T ss_pred CCHHHHHHHHHHHHHcCCCcccEEEEEcCc
Confidence 346678999999999999999999998653
No 16
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=41.82 E-value=23 Score=36.29 Aligned_cols=101 Identities=23% Similarity=0.415 Sum_probs=64.5
Q ss_pred CCCeEeeCCCCC--------CccCCccccCCCCCCC----HHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCC
Q 013308 113 RPGVIINHPHGD--------DVYKGVPKDYTGEDVT----VENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGG 180 (445)
Q Consensus 113 ~pG~i~n~p~g~--------dvY~gv~iDY~g~~Vt----~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg 180 (445)
.||+|.+ -||. ++|+-..++-.|.-+. |+.+...|.-- .|+ | +-+|||-|
T Consensus 103 ~PGrVLH-iDGD~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~--------------~PD--I-lViTGHD~ 164 (283)
T TIGR02855 103 MPGRVLH-IDGDPEYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEV--------------RPD--I-LVITGHDA 164 (283)
T ss_pred CCCcEEe-ecCCHHHHHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHh--------------CCC--E-EEEeCchh
Confidence 4999876 3442 4565444444444333 44455555411 232 3 45799965
Q ss_pred CCCcCC----CC-CCCCCHHHHHHHHHHHHHcC-CCceEEEEeecccccccccccCCCCCc
Q 013308 181 PGVLGM----PT-SRYIYADELIDVLKKKHASG-NYKSLVFYLEACESGSIFEGLLPEGLN 235 (445)
Q Consensus 181 ~g~l~f----pd-~~~L~a~dL~~~L~~M~~~~-~Ykkmvf~iEAC~SGSmf~~llp~~~n 235 (445)
+++= .| ..|-.++.+.++.+....-. -+-+|||+.-|||| -||.||..+.|
T Consensus 165 --~~K~~~d~~dl~~YrnSkyFVeaVk~aR~y~~~~D~LVIFAGACQS--~yEall~AGAN 221 (283)
T TIGR02855 165 --YSKNKGNYMDLNAYRHSKYFVETVREARKYVPSLDQLVIFAGACQS--HFESLIRAGAN 221 (283)
T ss_pred --hhcCCCChhhhhhhhhhHHHHHHHHHHHhcCCCcccEEEEcchhHH--HHHHHHHcCcc
Confidence 5442 22 24778999999999986644 67799999999997 78888776655
No 17
>PF03568 Peptidase_C50: Peptidase family C50; InterPro: IPR005314 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C50 (separase family, clan CD). The active site residues for members of this family and family C14 occur in the same order in the sequence: H,C. The separases are caspase-like proteases, which plays a central role in the chromosome segregation. In yeast they cleave the rad21 subunit of the cohesin complex at the onset of anaphase. During most of the cell cycle, separase is inactivated by the securin/cut2 protein, which probably covers its active site. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0005634 nucleus
Probab=40.51 E-value=32 Score=36.18 Aligned_cols=43 Identities=26% Similarity=0.473 Sum_probs=27.9
Q ss_pred CCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCceEEEEeeccccccccc
Q 013308 168 NDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKHASGNYKSLVFYLEACESGSIFE 227 (445)
Q Consensus 168 ~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~~~~~Ykkmvf~iEAC~SGSmf~ 227 (445)
+.++||| .||||=. .|+...++.+ + -+.-+.++=+|-||.+-.
T Consensus 308 ~~dlf~Y-~GHG~G~-------qy~~~~~i~~----~-----~~~~~~lL~GCsS~~l~~ 350 (383)
T PF03568_consen 308 SSDLFLY-CGHGSGE-------QYISGSTIQR----L-----DCCAVSLLMGCSSGRLKE 350 (383)
T ss_pred hCCeEEE-ecCCcHH-------HhCCHhhhcc----c-----cccCceEEecCCcccccc
Confidence 4558885 6999832 3555555432 2 234577888999998765
No 18
>PRK10834 vancomycin high temperature exclusion protein; Provisional
Probab=39.21 E-value=28 Score=34.74 Aligned_cols=38 Identities=21% Similarity=0.329 Sum_probs=27.2
Q ss_pred CeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEE
Q 013308 59 TRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIV 99 (445)
Q Consensus 59 ~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIv 99 (445)
+.=.+||+|-++=..| ..+-.|.+.|.+.|||++.|++
T Consensus 81 k~~~ilvSGg~~~~~~---~Ea~~M~~yLi~~GVp~e~Ii~ 118 (239)
T PRK10834 81 KVNYLLLSGDNALQSY---NEPMTMRKDLIAAGVDPSDIVL 118 (239)
T ss_pred CCCEEEEeCCCCCCCC---CHHHHHHHHHHHcCCCHHHEEe
Confidence 3334888887643333 3455689999999999999987
No 19
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=32.93 E-value=35 Score=35.04 Aligned_cols=102 Identities=29% Similarity=0.536 Sum_probs=63.8
Q ss_pred CCCeEeeCCCCC--------CccCCccccCCCCCCC----HHHHHHHHcCCCCCCCCCCCCcccCCCCCeEEEEeecCCC
Q 013308 113 RPGVIINHPHGD--------DVYKGVPKDYTGEDVT----VENFFAVILGNKTALTGGSGKVVDSGPNDHIFIFYSDHGG 180 (445)
Q Consensus 113 ~pG~i~n~p~g~--------dvY~gv~iDY~g~~Vt----~~nfl~vL~G~~~~~~~~s~kvl~S~~~D~VFIY~tdHGg 180 (445)
.||+|.+ -||. ++|+-..|+=.|.-+. |+.+...|.-- .|+ | +-+|||=|
T Consensus 104 ~PGkVLH-lDGD~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~--------------~PD--I-lViTGHD~ 165 (287)
T PF05582_consen 104 RPGKVLH-LDGDEEYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEY--------------RPD--I-LVITGHDG 165 (287)
T ss_pred CCCeEEE-ecCCHHHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHc--------------CCC--E-EEEeCchh
Confidence 7999876 3442 4565444444454444 34444444411 232 3 45799966
Q ss_pred CCCcCCC----C-CCCCCHHHHHHHHHHHHH-cCCCceEEEEeecccccccccccCCCCCcE
Q 013308 181 PGVLGMP----T-SRYIYADELIDVLKKKHA-SGNYKSLVFYLEACESGSIFEGLLPEGLNI 236 (445)
Q Consensus 181 ~g~l~fp----d-~~~L~a~dL~~~L~~M~~-~~~Ykkmvf~iEAC~SGSmf~~llp~~~nV 236 (445)
+++=. + ..|=.++.+.++.+...+ ..-+-+|||+.-|||| -||.||..+.|-
T Consensus 166 --~~K~~~d~~dl~~YrnSkyFVeaV~~aR~~ep~~D~LVIfAGACQS--~fEall~AGANF 223 (287)
T PF05582_consen 166 --YLKNKKDYSDLNNYRNSKYFVEAVKEARKYEPNLDDLVIFAGACQS--HFEALLEAGANF 223 (287)
T ss_pred --hhcCCCChhhhhhhhccHHHHHHHHHHHhcCCCcccEEEEcchhHH--HHHHHHHcCccc
Confidence 43322 2 236678899999988765 3456799999999997 788888766553
No 20
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=31.17 E-value=46 Score=29.54 Aligned_cols=35 Identities=23% Similarity=0.390 Sum_probs=20.6
Q ss_pred EEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEE
Q 013308 63 VLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIV 99 (445)
Q Consensus 63 VlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIv 99 (445)
||++|..+... ....+-.+-++|.+.|+|+++|++
T Consensus 41 il~SGg~~~~~--~~~ea~~~~~~l~~~gvp~~~I~~ 75 (155)
T PF02698_consen 41 ILFSGGYGHGD--GRSEAEAMRDYLIELGVPEERIIL 75 (155)
T ss_dssp EEEE--SSTTH--TS-HHHHHHHHHHHT---GGGEEE
T ss_pred EEECCCCCCCC--CCCHHHHHHHHHHhcccchheeEc
Confidence 77777665544 334555667788888999999988
No 21
>cd06259 YdcF-like YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.
Probab=29.18 E-value=44 Score=29.49 Aligned_cols=38 Identities=16% Similarity=0.155 Sum_probs=27.2
Q ss_pred eeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEE
Q 013308 60 RWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIV 99 (445)
Q Consensus 60 ~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIv 99 (445)
.--||++|..+...... .+-.|.+.|.+.|+|++.|++
T Consensus 35 ~~~ii~sGg~~~~~~~~--ea~~m~~~l~~~gv~~~~I~~ 72 (150)
T cd06259 35 APKLIVSGGQGPGEGYS--EAEAMARYLIELGVPAEAILL 72 (150)
T ss_pred CCEEEEcCCCCCCCCCC--HHHHHHHHHHHcCCCHHHeee
Confidence 44577777766553333 455667899999999999887
No 22
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=25.45 E-value=65 Score=32.71 Aligned_cols=42 Identities=36% Similarity=0.560 Sum_probs=29.9
Q ss_pred hhHHHHHHHHHHh-CCCCCCCEEEEecc-------ccccCCCCCCCCeEeeCC
Q 013308 77 QADICHAYQLLRK-GGLKDENIIVFMYD-------DIAFNEENPRPGVIINHP 121 (445)
Q Consensus 77 qaDv~~~YqiL~~-~Gi~denIIvmmyD-------DiA~n~~Np~pG~i~n~p 121 (445)
.+|+-++|+.||+ .| ++|.|||+-.- |.|+ |+|..|.|.+.|
T Consensus 112 y~Di~avye~Lr~~~g-~~~~Iil~G~SiGt~~tv~Las--r~~~~alVL~SP 161 (258)
T KOG1552|consen 112 YADIKAVYEWLRNRYG-SPERIILYGQSIGTVPTVDLAS--RYPLAAVVLHSP 161 (258)
T ss_pred hhhHHHHHHHHHhhcC-CCceEEEEEecCCchhhhhHhh--cCCcceEEEecc
Confidence 4899999999976 78 99999998532 2232 555566666655
No 23
>cd06183 cyt_b5_reduct_like Cytochrome b5 reductase catalyzes the reduction of 2 molecules of cytochrome b5 using NADH as an electron donor. Like ferredoxin reductases, these proteins have an N-terminal FAD binding subdomain and a C-terminal NADH binding subdomain, separated by a cleft, which accepts FAD. The NADH-binding moiety interacts with part of the FAD and resembles a Rossmann fold. However, NAD is bound differently than in canonical Rossmann fold proteins. Nitrate reductases, flavoproteins similar to pyridine nucleotide cytochrome reductases, catalyze the reduction of nitrate to nitrite. The enzyme can be divided into three functional fragments that bind the cofactors molybdopterin, heme-iron, and FAD/NADH.
Probab=24.76 E-value=37 Score=31.76 Aligned_cols=35 Identities=26% Similarity=0.360 Sum_probs=27.1
Q ss_pred CeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEEE
Q 013308 59 TRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIVF 100 (445)
Q Consensus 59 ~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIvm 100 (445)
..-.|.|+|+.++-+ -.+.+.|++.|+|++||.+|
T Consensus 200 ~~~~~~icGp~~~~~-------~~~~~~l~~~G~~~~~i~~~ 234 (234)
T cd06183 200 EDTLVLVCGPPPMIE-------GAVKGLLKELGYKKDNVFKF 234 (234)
T ss_pred CCeEEEEECCHHHHH-------HHHHHHHHHcCCCHHHEEeC
Confidence 345788999987642 16777889999999999875
No 24
>COG5155 ESP1 Separase, a protease involved in sister chromatid separation [Cell division and chromosome partitioning / Posttranslational modification, protein turnover, chaperones]
Probab=24.71 E-value=42 Score=40.05 Aligned_cols=43 Identities=21% Similarity=0.515 Sum_probs=29.0
Q ss_pred CCeEEEEeecCCCCCCcCCCCCCCCCHHHHHHHHHHHHHcCCCceEEEEeeccccccccc
Q 013308 168 NDHIFIFYSDHGGPGVLGMPTSRYIYADELIDVLKKKHASGNYKSLVFYLEACESGSIFE 227 (445)
Q Consensus 168 ~D~VFIY~tdHGg~g~l~fpd~~~L~a~dL~~~L~~M~~~~~Ykkmvf~iEAC~SGSmf~ 227 (445)
+.++|+|| ||||- ..|+...|++..= + =.+.++=+|.|+.|..
T Consensus 1489 g~d~flYf-GHGgG-------eQY~~s~ei~~~~-------~--~a~~~L~GCSS~al~~ 1531 (1622)
T COG5155 1489 GCDVFLYF-GHGGG-------EQYLKSSEIKKCG-------E--GATMLLFGCSSVALLC 1531 (1622)
T ss_pred CCCEEEEE-ecCCc-------ceeeeHhhhhhhc-------c--cceeEEecCcHHHHHH
Confidence 45689987 89982 2367788874321 1 2355677999999865
No 25
>PRK10494 hypothetical protein; Provisional
Probab=24.07 E-value=65 Score=32.16 Aligned_cols=39 Identities=15% Similarity=0.150 Sum_probs=29.3
Q ss_pred CeeEEEEeccCCCCCchhhhHHHHHHHHHHhCCCCCCCEEE
Q 013308 59 TRWAVLLAGSNGFWNYRHQADICHAYQLLRKGGLKDENIIV 99 (445)
Q Consensus 59 ~~wAVlVagS~gw~NYRHqaDv~~~YqiL~~~Gi~denIIv 99 (445)
..--||++|..+..+- .+.+-.+-+.|++.|+|++.|++
T Consensus 120 ~~~~ii~SGg~~~~~~--~sEA~~~~~~l~~lGVp~~~Ii~ 158 (259)
T PRK10494 120 PGAKLIFTGGAAKTNT--VSTAEVGARVAQSLGVPREDIIT 158 (259)
T ss_pred CCCEEEEECCCCCCCC--CCHHHHHHHHHHHcCCCHHHeee
Confidence 3456888887775542 34566778889999999999977
No 26
>KOG3332 consensus N-acetylglucosaminyl phosphatidylinositol de-N-acetylase [Cell wall/membrane/envelope biogenesis]
Probab=23.47 E-value=1.7e+02 Score=29.43 Aligned_cols=63 Identities=21% Similarity=0.094 Sum_probs=40.5
Q ss_pred cCccccccccCCCCCCCcCCCCCCCCCeeEEEEeccCCCCCchhhhHHH--HHHHHHHhCCCCCCCEEEEeccc
Q 013308 33 LPSEAYRFFHNGGGGAKVNDDDDSVGTRWAVLLAGSNGFWNYRHQADIC--HAYQLLRKGGLKDENIIVFMYDD 104 (445)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~wAVlVagS~gw~NYRHqaDv~--~~YqiL~~~Gi~denIIvmmyDD 104 (445)
=|.+++.||.|.-. .-..+..|.=+++=|+| |+-++.-+- ..-+..-..|+|.+|++++-+.+
T Consensus 46 hpdDE~mFFsPtI~-------~L~~~~~~v~iLClSnG--N~dg~G~iR~kEL~ra~~~lgi~~s~v~~l~~~~ 110 (247)
T KOG3332|consen 46 HPDDESMFFSPTIL-------YLTSGACNVHILCLSNG--NADGLGKIREKELHRACAVLGIPLSNVVVLDTPF 110 (247)
T ss_pred ccCccccchhhHHH-------HHhcCCccEEEEEecCC--CccccchHHHHHHHHHHHHHCCchhheEEecCCc
Confidence 35556677765110 11235668888899999 888877543 22233345899999999996554
No 27
>PRK10649 hypothetical protein; Provisional
Probab=20.58 E-value=59 Score=36.23 Aligned_cols=17 Identities=24% Similarity=0.661 Sum_probs=13.9
Q ss_pred CCCCCeEEEEeecCCCC
Q 013308 165 SGPNDHIFIFYSDHGGP 181 (445)
Q Consensus 165 S~~~D~VFIY~tdHGg~ 181 (445)
...++.++||+||||..
T Consensus 449 ~~~~nt~iiy~SDHGe~ 465 (577)
T PRK10649 449 ATDPNGFLVYFSDHGEE 465 (577)
T ss_pred cCCCCeEEEEECCCCcc
Confidence 33578999999999975
Done!