Query 016176
Match_columns 394
No_of_seqs 183 out of 429
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 04:29:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016176.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016176hhsearch_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 1E-130 2E-135 957.7 31.1 390 1-393 87-477 (477)
2 PF01650 Peptidase_C13: Peptid 100.0 2.6E-67 5.7E-72 506.4 18.6 215 1-232 42-256 (256)
3 KOG1349 Gpi-anchor transamidas 100.0 6.3E-53 1.4E-57 396.4 12.5 216 1-233 70-291 (309)
4 COG5206 GPI8 Glycosylphosphati 100.0 2E-43 4.3E-48 334.1 11.0 217 1-234 70-292 (382)
5 PF00656 Peptidase_C14: Caspas 98.4 2.2E-07 4.8E-12 87.2 5.3 143 36-202 43-230 (248)
6 smart00115 CASc Caspase, inter 96.6 0.01 2.3E-07 57.0 9.3 123 66-203 71-214 (241)
7 cd00032 CASc Caspase, interleu 96.0 0.031 6.6E-07 53.7 8.5 144 36-203 51-218 (243)
8 KOG1546 Metacaspase involved i 95.5 0.03 6.4E-07 56.1 6.5 60 65-127 135-211 (362)
9 PF14538 Raptor_N: Raptor N-te 90.1 0.3 6.5E-06 44.2 3.4 73 37-128 70-152 (154)
10 PF12770 CHAT: CHAT domain 82.8 1.1 2.5E-05 42.9 3.3 67 33-123 123-201 (287)
11 PF01364 Peptidase_C25: Peptid 64.7 7.5 0.00016 39.5 4.0 104 69-202 238-351 (378)
12 COG4249 Uncharacterized protei 59.1 7.2 0.00016 40.4 2.6 60 67-130 132-207 (380)
13 TIGR02855 spore_yabG sporulati 56.3 10 0.00022 37.6 3.1 100 14-135 104-221 (283)
14 PF12554 MOZART1: Mitotic-spin 43.9 39 0.00084 24.8 3.7 26 350-375 21-46 (48)
15 PF05582 Peptidase_U57: YabG p 38.6 25 0.00054 35.0 2.7 101 13-135 104-222 (287)
16 PRK10649 hypothetical protein; 26.9 37 0.0008 37.0 1.9 18 64-81 448-465 (577)
17 PF03415 Peptidase_C11: Clostr 24.6 48 0.001 34.4 2.1 72 37-125 76-160 (397)
18 KOG1387 Glycosyltransferase [C 24.5 69 0.0015 33.3 3.1 36 31-75 79-115 (465)
19 COG4566 TtrR Response regulato 24.2 78 0.0017 30.0 3.2 62 29-106 50-121 (202)
20 COG2194 Predicted membrane-ass 22.4 48 0.001 36.1 1.7 18 63-80 439-456 (555)
21 PRK09598 lipid A phosphoethano 20.8 55 0.0012 35.3 1.7 17 65-81 426-442 (522)
22 PF07999 RHSP: Retrotransposon 20.2 5E+02 0.011 27.5 8.6 101 93-203 187-299 (439)
No 1
>KOG1348 consensus Asparaginyl peptidases [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=9.8e-131 Score=957.70 Aligned_cols=390 Identities=59% Similarity=1.041 Sum_probs=376.8
Q ss_pred CCcccCCCCCCCCCCeEeeCCCCCCccCCcCccCCCCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCC
Q 016176 1 MYDDIAMHELNPRPGVIINHPQGENLYDGVPKDYTGEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGG 80 (394)
Q Consensus 1 myDDia~n~~Np~pG~i~n~~~g~nvY~gv~iDY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~ 80 (394)
||||||+||+||+||+|||+|+|+|||+||++||+|++|||+||++||.|++++++|||||||+|+|||||||||+||||
T Consensus 87 MYDDIA~~~~NPrpG~iiN~P~G~DvY~GvpkDYtg~~Vt~~Nf~aVllGd~savkGGsGKV~~SgpnDhiFiYytDHG~ 166 (477)
T KOG1348|consen 87 MYDDIANNEENPRPGVIINRPNGKDVYQGVPKDYTGEDVTPQNFLAVLLGDASAVKGGSGKVLKSGPNDHIFIYYTDHGG 166 (477)
T ss_pred EehhhhcCCCCCCCceeecCCCchhhhcCCCCcccCCcCCHHHHHHHHhcccccccCCCceeeccCCCceEEEEEecCCC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccCCCCCCCCCHHHHHHHHHHHHHhcCCCcEEEEEecccccccccccCCCCCCEEEEeccCCCCccccccCCCCCCCC
Q 016176 81 PGVLGMPNMPYVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSIFEGVMPKDLDIYVTTASNAQESSFGTYCPGMDPSP 160 (394)
Q Consensus 81 ~g~l~fp~~~~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm~~~~l~~~~nv~~~tas~~~EsSy~~~~~~~~~~~ 160 (394)
||.|.||+++.|+++||+++|++||+.++|++||||+||||||||||++||+++||||+||||+.||||++|||+++|+|
T Consensus 167 pGvl~mP~~~~l~akdlnevL~kmhk~k~Y~~mvfYlEACESGSmfegiLp~~lnIYatTAaNa~ESSwgtycp~~~psp 246 (477)
T KOG1348|consen 167 PGVLGMPTSPDLYAKDLNEVLKKMHKSKTYKKMVFYLEACESGSMFEGILPKNLNIYATTAANARESSWGTYCPGEYPSP 246 (477)
T ss_pred CceEecCCCcchhHHHHHHHHHHHHhccchheEEEEeeeccCcchhhhhccCCCcEEEeecCCccccccceeCCCCCCCC
Confidence 99999999888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccchhhhhhhhhhcccccCCCccccHHHHHHHHHhhhccCCCCCCCCccccccCCcccccccccccccCCCCCCCC
Q 016176 161 PPEYITCLGDLYSVAWMEDSETHNLKRETISQQYQAVKERTSNFNNYNSGSHVMEYGNTSVKSEKLYLYQGFDPASTNFP 240 (394)
Q Consensus 161 ~~~~~t~lgD~fs~~wme~~~~~~~~~~tl~~~~~~v~~~t~~~~~~~~~Shv~~yGd~~~~~~~l~~f~g~~~~~~~~~ 240 (394)
++++.|||||+||++||||||.+|+++|||.+||+.||++|+.+ |..|||||||||..|++++|..|||.+|++++++
T Consensus 247 pse~~tcLGDlySV~WmeDSd~hdL~kETL~qQYhlVK~rt~~s--~s~gsHVmqyGd~~iske~l~lfqG~~pa~~nf~ 324 (477)
T KOG1348|consen 247 PSEYSTCLGDLYSVNWMEDSDVHDLKKETLHQQYHLVKKRTNTS--YSYGSHVMQYGDKTISKEKLMLFQGMKPANENFT 324 (477)
T ss_pred hhhcccccccceeeeeeccCccccchHHHHHHHHHHHHHhcCCC--CCCcceeeecCcchhhHHHHHHHcCCCcccCCCC
Confidence 99999999999999999999999999999999999999999876 6679999999999999999999999999998875
Q ss_pred C-CCCCCCCCCcccccchhHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccccccccccc
Q 016176 241 P-NKLQPDQMGVVNQRDADLLFMWHMYKNAAEGSEKKSEMLKQITETMRHRKHLDASIDMIGVILFGPDKGSRILNSVRA 319 (394)
Q Consensus 241 ~-~~~~~~~~~~v~~rd~~L~~l~~~~~~a~~~~~~k~~a~~eL~~~l~~R~~id~~v~~I~~~l~~~~~~~~~l~~~~~ 319 (394)
- ..+..+++..|||||+||++||+|++++++++.++.++++++.+++.||++||+++..|+.++|+. +...+|+.+|+
T Consensus 325 l~~~s~~~~s~~~n~rD~~L~~l~~k~rka~dgs~~s~e~~k~i~~~~~hR~~id~sV~~I~~llf~~-~~~~~l~~vr~ 403 (477)
T KOG1348|consen 325 LPASSHKSPSGLTNQRDAPLLHLWRKYRKANDGSAESRELQKEILRHKDHRKHIDKSVRLIVSLLFGS-EGEAVLNQVRS 403 (477)
T ss_pred CCccCcCCccccCCCCCccHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc-chHHHHHHhhc
Confidence 2 234445677899999999999999999999998999999999999999999999999999999987 45568889999
Q ss_pred CCCCCcCcchhHHHHHHHHhhhcCCCchhhhhHHHHHHHHHhcCCCHHHHHHHHHhhcCCCCCCCccccccCCC
Q 016176 320 RGLPLVDDWQCLKSMVRVFETHCGSLTQYGMKHMRAFANICNSGVSQALMEETSEAACSGNELRQWHPAIRGYS 393 (394)
Q Consensus 320 ~g~plv~d~dCyk~~V~~Fe~~Cg~l~eY~lkylrvLaNLCe~G~~~~~i~~Ai~~~C~~~~~~~~~~~~~~~~ 393 (394)
.|+|+++||+|+|.+|++|+++||+++||||||||+|+|||+.|++.++|.+|+.++|...+..+|+++.+|||
T Consensus 404 ~g~Plvddw~C~k~~v~~F~~hCg~~~~YglKh~~~~aN~Cn~g~~~e~~~~A~~~aC~~~~~~~~~~~~~gfs 477 (477)
T KOG1348|consen 404 EGQPLVDDWDCLKSAVRHFETHCGSTYEYGLKHMRVLANMCNKGVPLEQIELAMDQACLGIYTEPWSSLRRGFS 477 (477)
T ss_pred CCCCccchHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhHhcCCccccchhhcccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999997
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=2.6e-67 Score=506.38 Aligned_cols=215 Identities=49% Similarity=0.839 Sum_probs=206.4
Q ss_pred CCcccCCCCCCCCCCeEeeCCCCCCccCCcCccCCCCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCC
Q 016176 1 MYDDIAMHELNPRPGVIINHPQGENLYDGVPKDYTGEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGG 80 (394)
Q Consensus 1 myDDia~n~~Np~pG~i~n~~~g~nvY~gv~iDY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~ 80 (394)
|||||||||+||+||+|||+|+|+|||+||+|||+|.+||+++|++||+|+++ + +++|||+|+++|+|||||+||||
T Consensus 42 ~~dd~a~~~~Np~~g~i~~~~~~~n~y~~~~iDY~g~~v~~~~fl~vL~G~~~-~--~~~kvl~s~~~D~vfiy~~~HG~ 118 (256)
T PF01650_consen 42 MYDDIACNPRNPFPGKIFNDPDGTNVYKGVEIDYRGEDVTPENFLNVLTGDKS-V--PSGKVLNSTENDNVFIYFTGHGG 118 (256)
T ss_pred ecCCccchhhCCCCceEEeCCCcccccCCccccccccccCHHHHHHHhcCCCC-C--CccccccCCCCCeEEEEEeccCC
Confidence 79999999999999999999999999999999999999999999999999998 4 57899999999999999999999
Q ss_pred CCccCCCCCCCCCHHHHHHHHHHHHHhcCCCcEEEEEecccccccccccCCCCCCEEEEeccCCCCccccccCCCCCCCC
Q 016176 81 PGVLGMPNMPYVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSIFEGVMPKDLDIYVTTASNAQESSFGTYCPGMDPSP 160 (394)
Q Consensus 81 ~g~l~fp~~~~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm~~~~l~~~~nv~~~tas~~~EsSy~~~~~~~~~~~ 160 (394)
+|+|+||+.+.|++.||.++|++|+++++|+||||++|||+|||||+. |++++||++||||+++|+||+|+|+
T Consensus 119 ~~~l~~~~~~~l~~~~L~~~L~~m~~~~~y~~lv~~veaC~SGs~~~~-L~~~~nv~~iTAa~~~e~Sy~~~~~------ 191 (256)
T PF01650_consen 119 PGFLKFPDGEELTADDLADALDKMHEKKRYKKLVFVVEACYSGSFFEG-LLKSPNVYVITAANADESSYGCYCS------ 191 (256)
T ss_pred CCcccCCCcccccHHHHHHHHHHHHhhCCcceEEEEEecccccchhhc-cCCCCCEEEEecCCccccccccccc------
Confidence 999999988889999999999999999999999999999999999998 6788999999999999999999993
Q ss_pred CCCcccchhhhhhhhhhcccccCCCccccHHHHHHHHHhhhccCCCCCCCCccccccCCccccccccccccc
Q 016176 161 PPEYITCLGDLYSVAWMEDSETHNLKRETISQQYQAVKERTSNFNNYNSGSHVMEYGNTSVKSEKLYLYQGF 232 (394)
Q Consensus 161 ~~~~~t~lgD~fs~~wme~~~~~~~~~~tl~~~~~~v~~~t~~~~~~~~~Shv~~yGd~~~~~~~l~~f~g~ 232 (394)
++++++||||+||++||++++.+++.++||.+||+.|+++|. +|||++|||.++.+++|++|||.
T Consensus 192 ~~~~~~~l~d~fs~~~m~~~~~~~~~~~Tl~~~f~~v~~~~~-------~shv~~~gd~s~~~~~v~~f~g~ 256 (256)
T PF01650_consen 192 DDSIGTYLGDAFSYNWMEDSDSHPLSEETLDDQFEYVKRKTT-------GSHVQQYGDPSIPQLPVSEFQGT 256 (256)
T ss_pred ccccccEeHHHHHHHhhhhhccCCccccCHHHHHHHHHHhcc-------cchHHhcCCCCccccCHHHhcCC
Confidence 258999999999999999999988999999999999999995 49999999999999999999984
No 3
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.3e-53 Score=396.35 Aligned_cols=216 Identities=22% Similarity=0.362 Sum_probs=195.5
Q ss_pred CCcccCCCCCCCCCCeEeeCCC-CCCccC-CcCccCCCCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecC
Q 016176 1 MYDDIAMHELNPRPGVIINHPQ-GENLYD-GVPKDYTGEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDH 78 (394)
Q Consensus 1 myDDia~n~~Np~pG~i~n~~~-g~nvY~-gv~iDY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdH 78 (394)
+|||+|||+|||+||+||++.+ +.|||. .|++||+|.+||+|||+++|+|+.+..+|+|+| |.+++.+|||||+|||
T Consensus 70 ladd~acn~RN~~pg~Vy~n~~~~~nlygd~vevdyrgyevtvEnflr~LTgR~~~~tprSKr-lltDe~SNIlIYmtGH 148 (309)
T KOG1349|consen 70 LADDMACNSRNPRPGTVYNNENHALNLYGDDVEVDYRGYEVTVENFLRVLTGRHPNNTPRSKR-LLTDEGSNILIYLTGH 148 (309)
T ss_pred eccccccccCCCCCcceeccccccccccCCcceeecccchhHHHHHHHHHcCCCCCCCchhhh-hcccCCCcEEEEEccC
Confidence 4899999999999999999997 589998 778999999999999999999999999999987 7799999999999999
Q ss_pred CCCCccCCCCCCCCCHHHHHHHHHHHHHhcCCCcEEEEEecccccccccccCCCCCCEEEEeccCCCCccccccCCCCCC
Q 016176 79 GGPGVLGMPNMPYVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSIFEGVMPKDLDIYVTTASNAQESSFGTYCPGMDP 158 (394)
Q Consensus 79 G~~g~l~fp~~~~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm~~~~l~~~~nv~~~tas~~~EsSy~~~~~~~~~ 158 (394)
||+|||+|||.++|+.+||++++++|++++||++|+|+||||+|.||++++.+ |||+|+++|..+|+|||++.|
T Consensus 149 Ggd~FlKFqd~eelts~dLadai~qm~e~~Ryneil~miDTCQaasly~~~~s--PNVLav~SS~~ge~SySh~~d---- 222 (309)
T KOG1349|consen 149 GGDGFLKFQDAEELTSDDLADAIQQMWEKKRYNEILFMIDTCQAASLYERFYS--PNVLAVASSLVGEPSYSHHSD---- 222 (309)
T ss_pred CCccceecccHHHhhhHHHHHHHHHHHHhhhhceEEEEeeccchHHHHHhhcC--CCeEEEeecccCCcccccCCC----
Confidence 99999999999999999999999999999999999999999999999999764 699999999999999999987
Q ss_pred CCCCCcccchhhhhhhhhhcccccC-CCccccHHHHHHHHHhhhccCCCCCCCCccccccC---CcccccccccccccC
Q 016176 159 SPPPEYITCLGDLYSVAWMEDSETH-NLKRETISQQYQAVKERTSNFNNYNSGSHVMEYGN---TSVKSEKLYLYQGFD 233 (394)
Q Consensus 159 ~~~~~~~t~lgD~fs~~wme~~~~~-~~~~~tl~~~~~~v~~~t~~~~~~~~~Shv~~yGd---~~~~~~~l~~f~g~~ 233 (394)
+.||+++.|+|++..++..++. ...+.||+++|+.+.++... |++-.--| ....+.++++|||..
T Consensus 223 ---~~Igv~vIDrftyy~l~flek~~~~~~~~l~dl~~s~~~~~~~-------St~gvr~dl~~r~~~~v~itDFFg~v 291 (309)
T KOG1349|consen 223 ---SDIGVYVIDRFTYYTLEFLEKGIGAKNRTLQDLFDSCPKRLLG-------STPGVRTDLYQRDPKDVLITDFFGSV 291 (309)
T ss_pred ---cccceeeeccchHHHHHHHHhcccchhhhHHHHHHhCChhhhc-------CCcCcccccccCCcccceeeeecccc
Confidence 4899999999999988877663 33455899999999998875 55544333 366889999999975
No 4
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2e-43 Score=334.07 Aligned_cols=217 Identities=18% Similarity=0.279 Sum_probs=192.7
Q ss_pred CCcccCCCCCCCCCCeEeeCCC-CCCccC-CcCccCCCCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecC
Q 016176 1 MYDDIAMHELNPRPGVIINHPQ-GENLYD-GVPKDYTGEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDH 78 (394)
Q Consensus 1 myDDia~n~~Np~pG~i~n~~~-g~nvY~-gv~iDY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdH 78 (394)
.|||.|||.||-|||.||++.+ +-++|. .++|||+|.+||+|+|.+.|+.+..+.+|.|+| |.+++++|||||++||
T Consensus 70 ~~dd~acnsRnlfpgsvf~N~Dra~dlyge~~eidY~gyevTve~firLLt~r~~en~p~sKr-lltdE~SNIfIYmtGH 148 (382)
T COG5206 70 SYDDQACNSRNLFPGSVFNNSDRAGDLYGEDSEIDYSGYEVTVEVFIRLLTARSGENHPKSKR-LLTDESSNIFIYMTGH 148 (382)
T ss_pred echhhhhhhcccCCcccccCcccccceeCcccccccccccchHHHHHHHHHhhccCCChhhhh-hcccccCcEEEEEccC
Confidence 3899999999999999999998 578886 779999999999999999999999988888876 7799999999999999
Q ss_pred CCCCccCCCCCCCCCHHHHHHHHHHHHHhcCCCcEEEEEecccccccccccCCCCCCEEEEeccCCCCccccccCCCCCC
Q 016176 79 GGPGVLGMPNMPYVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSIFEGVMPKDLDIYVTTASNAQESSFGTYCPGMDP 158 (394)
Q Consensus 79 G~~g~l~fp~~~~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm~~~~l~~~~nv~~~tas~~~EsSy~~~~~~~~~ 158 (394)
||++||+|+|.++|+++||++++.+|+++|||++++|+||||++.+|+.+... |||+|+++|.-++|||++|.|
T Consensus 149 Ggd~FlKFqdaeemtseDladai~ql~~~kRyNeIlfmiDTCQAnaly~k~ys--PNvLavgsSeig~ssyShhsd---- 222 (382)
T COG5206 149 GGDAFLKFQDAEEMTSEDLADAISQLAAKKRYNEILFMIDTCQANALYDKSYS--PNVLAVGSSEIGQSSYSHHSD---- 222 (382)
T ss_pred CCccceecccHHHhhhHHHHHHHHHHHHhhhhceEEEEeeccccchhhhhccC--CceEEEeccccCCccccccch----
Confidence 99999999999999999999999999999999999999999999999998764 699999999999999999987
Q ss_pred CCCCCcccchhhhhhhhhhcccccC-CCccccHHHHHHHHHhhhccCCCCCCCCcccccc---CCcccccccccccccCC
Q 016176 159 SPPPEYITCLGDLYSVAWMEDSETH-NLKRETISQQYQAVKERTSNFNNYNSGSHVMEYG---NTSVKSEKLYLYQGFDP 234 (394)
Q Consensus 159 ~~~~~~~t~lgD~fs~~wme~~~~~-~~~~~tl~~~~~~v~~~t~~~~~~~~~Shv~~yG---d~~~~~~~l~~f~g~~~ 234 (394)
..+|+.++|+|++.+++..++- -.++.||++++.....+. ++|||..-- |..-++-.+++|||...
T Consensus 223 ---~~IgvaVIDrFty~~l~fle~id~~skltlqDL~~s~n~e~-------ihS~~gv~~~~fdr~p~d~litDFF~nVq 292 (382)
T COG5206 223 ---SLIGVAVIDRFTYFFLKFLEKIDIGSKLTLQDLLASLNKEP-------IHSHVGVRELVFDRRPSDFLITDFFANVQ 292 (382)
T ss_pred ---hhhhHHHhhcchHHHHHHHhhcCcCCeeEHHHHHHhcCccc-------ccCCCCcccccccCCccceeehHhhhhhh
Confidence 4899999999999988766653 347899999999887665 469985422 33445667899998653
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=98.44 E-value=2.2e-07 Score=87.22 Aligned_cols=143 Identities=18% Similarity=0.267 Sum_probs=95.5
Q ss_pred CCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCCC--Cc----cCCCCCCCCCHHH---HHHHHHHHHH
Q 016176 36 GEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGGP--GV----LGMPNMPYVYAME---FIDVLKKKHA 106 (394)
Q Consensus 36 g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~~--g~----l~fp~~~~l~~~d---l~~~l~~M~~ 106 (394)
..++|.+++++.|+--.. ...++|.|+|||+|||.. +. +.-.++..+..+. +.+.|..+..
T Consensus 43 ~~~~t~~~i~~~l~~l~~----------~~~~~D~~~~yfsGHG~~~~~~~~~~~~~~d~~~~~~d~~~~~~~~l~~~~~ 112 (248)
T PF00656_consen 43 IDNATRANILKALRELLQ----------RAQPGDSVVFYFSGHGIQVDGEGGDEDSGYDGYLLPLDANLILDDELRDLLC 112 (248)
T ss_dssp EESSSHHHHHHHHHHHHT----------SGGTCSEEEEEEESEEETETTCCSTEEEETSSEEEEHHHHEEHHHHTSTTTT
T ss_pred ccchHHHHHHHHHhhhhc----------cCCCCCeeEEEEeccccccCCccCcccccccceeeecchhhhHHHHHhhhhh
Confidence 456899999999882211 123889999999999965 21 1111333344444 6777777766
Q ss_pred hcC-CC-cEEEEEecccccccccccC----------------------------CCCCCEEEEeccCCCCccccccCCCC
Q 016176 107 AKS-YK-GMVIYVEACESGSIFEGVM----------------------------PKDLDIYVTTASNAQESSFGTYCPGM 156 (394)
Q Consensus 107 ~~~-y~-~~v~~ieaC~SgSm~~~~l----------------------------~~~~nv~~~tas~~~EsSy~~~~~~~ 156 (394)
+.. -+ + +|++|+|+||.+..... +...++++++|+.++|.||.. ++
T Consensus 113 ~~~~~~~k-~~ilD~C~sg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~as~~~~~s~e~--~~- 188 (248)
T PF00656_consen 113 KSLPKKPK-LFILDCCRSGGFIDGLSSSSGESSKREERKLSSSIPPEDPNRSDVPSPSGFIVLSASRPGQTSYED--SP- 188 (248)
T ss_dssp GGGTTS-E-EEEEESESSSBTBCEEEEEESSSTSS-EECHCCCCCCSSCCSEEEETTTSEEEEESSSTTBCEEEE--CT-
T ss_pred hhccCCcc-EEeeccccCCccCCccccccccccccccccccccccccccccccccCCCCcEEEEeccccceeecc--cC-
Confidence 522 22 4 99999999999876420 134589999999999999987 11
Q ss_pred CCCCCCCcccchhhhhhhhhhccccc------CCCccccHHHHHHHHHhhhc
Q 016176 157 DPSPPPEYITCLGDLYSVAWMEDSET------HNLKRETISQQYQAVKERTS 202 (394)
Q Consensus 157 ~~~~~~~~~t~lgD~fs~~wme~~~~------~~~~~~tl~~~~~~v~~~t~ 202 (394)
--+-+|+..+++-... ......+|.+++..|++++.
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 1234577877765422 12345889999999998873
No 6
>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=96.64 E-value=0.01 Score=56.98 Aligned_cols=123 Identities=12% Similarity=0.175 Sum_probs=74.5
Q ss_pred CCCCeEEEEeecCCCCCccCCCCCCCCCHHHHHHHHHHHH-HhcCCCcEEEEEecccccccccc----------------
Q 016176 66 KANDRIFIFYSDHGGPGVLGMPNMPYVYAMEFIDVLKKKH-AAKSYKGMVIYVEACESGSIFEG---------------- 128 (394)
Q Consensus 66 ~~~D~VfiY~tdHG~~g~l~fp~~~~l~~~dl~~~l~~M~-~~~~y~~~v~~ieaC~SgSm~~~---------------- 128 (394)
...|-+++||.+||+.|+|.-.|+..+.-++|.+.|..-. ..-+-|=-+|+|+||...-+-.+
T Consensus 71 ~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~c~~L~~kPKlffiqACRg~~~~~g~~~~~~~~~~~~~~~~ 150 (241)
T smart00115 71 SDSDSFVCVLLSHGEEGGIYGTDHSPLPLDEIFSLFNGDNCPSLAGKPKLFFIQACRGDELDGGVPVEDDVDDPPTEFED 150 (241)
T ss_pred CCCCEEEEEEcCCCCCCeEEEecCCEEEHHHHHHhccccCChhhcCCCcEEEEeCCCCCCCCCCeecccccccccccccc
Confidence 3567899999999999988877776577777777763211 11122445789999975422111
Q ss_pred ----cCCCCCCEEEEeccCCCCccccccCCCCCCCCCCCcccchhhhhhhhhhcccccCCCccccHHHHHHHHHhhhcc
Q 016176 129 ----VMPKDLDIYVTTASNAQESSFGTYCPGMDPSPPPEYITCLGDLYSVAWMEDSETHNLKRETISQQYQAVKERTSN 203 (394)
Q Consensus 129 ----~l~~~~nv~~~tas~~~EsSy~~~~~~~~~~~~~~~~t~lgD~fs~~wme~~~~~~~~~~tl~~~~~~v~~~t~~ 203 (394)
.+|...++++.=|+.++.-||-. +.-|+.+.-.+--.+-+ ....+.|.++|..|.+++..
T Consensus 151 ~~~~~~p~~~D~li~ysT~pG~va~r~----------~~~gS~fi~~L~~~l~~-----~~~~~~l~~ilt~V~~~V~~ 214 (241)
T smart00115 151 DAIYKIPVEADFLAAYSTTPGYVSWRN----------PTRGSWFIQSLCQVLKE-----YARSLDLLDILTEVNRKVAV 214 (241)
T ss_pred cccccCCCcCcEEEEEeCCCCeEeecC----------CCCCchHHHHHHHHHHH-----cCCCCCHHHHHHHHHHHHhh
Confidence 13444567766676666666543 12233322222222221 12567899999999999864
No 7
>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=95.98 E-value=0.031 Score=53.69 Aligned_cols=144 Identities=13% Similarity=0.155 Sum_probs=87.9
Q ss_pred CCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCCCCccCCCCCCCCCHHHHHHHHHHHH-HhcCCCcEE
Q 016176 36 GEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGGPGVLGMPNMPYVYAMEFIDVLKKKH-AAKSYKGMV 114 (394)
Q Consensus 36 g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~~g~l~fp~~~~l~~~dl~~~l~~M~-~~~~y~~~v 114 (394)
..++|.+.+.+.|.--. .+ +....|-+++||.+||..+.|.-.|+..+.-++|.+.|..-. ..-+-|=-+
T Consensus 51 ~~nlt~~~~~~~l~~f~-------~~--~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~~~~sl~~kPKl 121 (243)
T cd00032 51 KNNLTAEEILEELKEFA-------SP--DHSDSDSFVCVILSHGEEGGIYGTDGDVVPIDEITSLFNGDNCPSLAGKPKL 121 (243)
T ss_pred eCCCCHHHHHHHHHHHH-------hc--cCCCCCeeEEEECCCCCCCEEEEecCcEEEHHHHHHhhccCCCccccCCCcE
Confidence 45777888887776321 11 235567789999999999988777755577777777765211 112234568
Q ss_pred EEEecccccccccc-----------------------cCCCCCCEEEEeccCCCCccccccCCCCCCCCCCCcccchhhh
Q 016176 115 IYVEACESGSIFEG-----------------------VMPKDLDIYVTTASNAQESSFGTYCPGMDPSPPPEYITCLGDL 171 (394)
Q Consensus 115 ~~ieaC~SgSm~~~-----------------------~l~~~~nv~~~tas~~~EsSy~~~~~~~~~~~~~~~~t~lgD~ 171 (394)
|+|+||...-+-.+ .+|...++++.=|+.++.-||-.- .-|+.
T Consensus 122 ~~iqACRg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~d~lv~ysT~pG~~a~r~~----------~~gS~---- 187 (243)
T cd00032 122 FFIQACRGDELDLGVEVDSGADEPPDVETEAEDDAVQTIPVEADFLVAYSTVPGYVSWRNT----------KKGSW---- 187 (243)
T ss_pred EEEECCCCCcCCCceeccCccccccccccccccccccCCCCcccEEEEecCCCCeEeecCC----------CCCCE----
Confidence 99999997654321 134445677777777776666431 12222
Q ss_pred hhhhhhcccccCCCccccHHHHHHHHHhhhcc
Q 016176 172 YSVAWMEDSETHNLKRETISQQYQAVKERTSN 203 (394)
Q Consensus 172 fs~~wme~~~~~~~~~~tl~~~~~~v~~~t~~ 203 (394)
|.-.+.+-.. +....+.|.+++..|.+++..
T Consensus 188 fi~~l~~~l~-~~~~~~~l~~il~~V~~~V~~ 218 (243)
T cd00032 188 FIQSLCQVLR-KYAHSLDLLDILTKVNRKVAE 218 (243)
T ss_pred eHHHHHHHHH-HhCCCCcHHHHHHHHHHHHhh
Confidence 2222222111 122357899999999998853
No 8
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.03 Score=56.12 Aligned_cols=60 Identities=20% Similarity=0.364 Sum_probs=39.1
Q ss_pred CCCCCeEEEEeecCCCC-------CccCCC------C----CCCCCHHHHHHHHHHHHHhcCCCcEEEEEeccccccccc
Q 016176 65 SKANDRIFIFYSDHGGP-------GVLGMP------N----MPYVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSIFE 127 (394)
Q Consensus 65 s~~~D~VfiY~tdHG~~-------g~l~fp------~----~~~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm~~ 127 (394)
..++|-+|+-|||||+. ..-+|- | +..|+.++.....+.+ ..=-+|-.++|+|+||++.+
T Consensus 135 aq~gD~LvfHYSGHGtr~~~~~gDe~dG~DE~I~P~D~~t~G~iIdDe~~r~lV~pl---p~G~~lt~I~DSCHSGgliD 211 (362)
T KOG1546|consen 135 AQPGDSLVFHYSGHGTRQPDTNGDEVDGYDETIVPCDHNTQGPIIDDEIFRILVRPL---PKGCKLTAISDSCHSGGLID 211 (362)
T ss_pred CCCCCEEEEEecCCCCcCCCCCCCCCCCCcceeecccccccccccchHHHHHHHhcc---CCCceEEEEeecccCCCccc
Confidence 45789999999999983 122221 1 1134455555444443 23357888999999999987
No 9
>PF14538 Raptor_N: Raptor N-terminal CASPase like domain
Probab=90.06 E-value=0.3 Score=44.19 Aligned_cols=73 Identities=16% Similarity=0.270 Sum_probs=53.9
Q ss_pred CCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCCCC------ccCCCCCC----CCCHHHHHHHHHHHHH
Q 016176 37 EHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGGPG------VLGMPNMP----YVYAMEFIDVLKKKHA 106 (394)
Q Consensus 37 ~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~~g------~l~fp~~~----~l~~~dl~~~l~~M~~ 106 (394)
-+.|++.+.+++..-. ...+++.|.+.|.|||-|. +..|...- .|+-.||...+..
T Consensus 70 ~dpt~e~~~~~~~~~R-----------~~a~~~RvLFHYnGhGvP~Pt~~GeIw~f~~~~tqyip~si~dL~~~lg~--- 135 (154)
T PF14538_consen 70 LDPTVEDLKRLCQSLR-----------RNAKDERVLFHYNGHGVPRPTENGEIWVFNKNYTQYIPLSIYDLQSWLGS--- 135 (154)
T ss_pred cCCCHHHHHHHHHHHH-----------hhCCCceEEEEECCCCCCCCCCCCeEEEEcCCCCcceEEEHHHHHHhcCC---
Confidence 4778888888776321 2344588999999999984 55554432 3788888888874
Q ss_pred hcCCCcEEEEEecccccccccc
Q 016176 107 AKSYKGMVIYVEACESGSIFEG 128 (394)
Q Consensus 107 ~~~y~~~v~~ieaC~SgSm~~~ 128 (394)
-.+|+.|...||++++.
T Consensus 136 -----Psi~V~DC~~AG~il~~ 152 (154)
T PF14538_consen 136 -----PSIYVFDCSNAGSILNA 152 (154)
T ss_pred -----CEEEEEECCcHHHHHHh
Confidence 88999999999998764
No 10
>PF12770 CHAT: CHAT domain
Probab=82.78 E-value=1.1 Score=42.88 Aligned_cols=67 Identities=21% Similarity=0.258 Sum_probs=43.6
Q ss_pred cCCCCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCCCC-------ccCCC-----CCCCCCHHHHHHH
Q 016176 33 DYTGEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGGPG-------VLGMP-----NMPYVYAMEFIDV 100 (394)
Q Consensus 33 DY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~~g-------~l~fp-----~~~~l~~~dl~~~ 100 (394)
-..+.+.|.++|+..|... .-=.|+|++||... .|.+. ++..|++.+|..
T Consensus 123 ~~~~~~at~~~l~~~l~~~-----------------~~~ilH~a~Hg~~~~~~~~~~~l~l~~~~~~~~~~l~~~~l~~- 184 (287)
T PF12770_consen 123 VLVGPEATKDALLEALERR-----------------GPDILHFAGHGTFDPDPPDQSGLVLSDESGQEDGLLSAEELAQ- 184 (287)
T ss_pred EeeccCCCHHHHHhhhccC-----------------CCCEEEEEcccccCCCCCCCCEEEEeccCCCCCcccCHHHHHh-
Confidence 3455666677766666211 11268999999876 67775 344699999988
Q ss_pred HHHHHHhcCCCcEEEEEeccccc
Q 016176 101 LKKKHAAKSYKGMVIYVEACESG 123 (394)
Q Consensus 101 l~~M~~~~~y~~~v~~ieaC~Sg 123 (394)
++- .+ -+ ++++-||+|+
T Consensus 185 l~l---~~--~~-lVvLsaC~s~ 201 (287)
T PF12770_consen 185 LDL---RG--PR-LVVLSACESA 201 (287)
T ss_pred hcC---CC--CC-EEEecCcCCc
Confidence 321 01 34 5678999999
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=64.72 E-value=7.5 Score=39.51 Aligned_cols=104 Identities=19% Similarity=0.213 Sum_probs=48.2
Q ss_pred CeEEEEeecCCCCCccCCCCCCCCCHHHHHHHHHHHHHhcCCCcEEEEEeccccccc-ccc-------c--CCCCCCEEE
Q 016176 69 DRIFIFYSDHGGPGVLGMPNMPYVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSI-FEG-------V--MPKDLDIYV 138 (394)
Q Consensus 69 D~VfiY~tdHG~~g~l~fp~~~~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm-~~~-------~--l~~~~nv~~ 138 (394)
...||.|.|||++... ..+.|+..++. .|. ...|--|++.-||..|.+ ... + .|+.--|..
T Consensus 238 G~~~v~y~GHG~~~~w---~~~~~~~~d~~-~l~-----N~~~~p~~~s~~C~~g~fd~~~~~sl~E~~v~~~~gGAia~ 308 (378)
T PF01364_consen 238 GAGFVNYFGHGSPTSW---ADEDFTSSDIS-NLN-----NKNKLPVVISAACYTGNFDDPDNPSLGEALVLNPNGGAIAF 308 (378)
T ss_dssp --SEEEEES-B-SSBB---TTT--BTTTGG-G--------TT---EEEEESSSTT-TTSSS---HHHHHHTTEE-S-SEE
T ss_pred CCeEEEEecCCchhhc---ccCcccHhHHH-Hhc-----CCCCceEEEEeECCCcCCCCCCCCcHHHHheECCCCcEEEE
Confidence 3468899999999854 22224444433 122 222456677789999988 332 1 232223555
Q ss_pred EeccCCCCccccccCCCCCCCCCCCcccchhhhhhhhhhcccccCCCccccHHHHHHHHHhhhc
Q 016176 139 TTASNAQESSFGTYCPGMDPSPPPEYITCLGDLYSVAWMEDSETHNLKRETISQQYQAVKERTS 202 (394)
Q Consensus 139 ~tas~~~EsSy~~~~~~~~~~~~~~~~t~lgD~fs~~wme~~~~~~~~~~tl~~~~~~v~~~t~ 202 (394)
++++. .+|.. ..+.|...+.+...... ..+|.+.+...+....
T Consensus 309 ig~s~---~~~~~----------------~~~~~~~~~~~~l~~~~--~~~lG~a~~~a~~~~~ 351 (378)
T PF01364_consen 309 IGSSR---VSYAS----------------PNDRLNRGFYEALFNSN--MDTLGEALRQAKNYYL 351 (378)
T ss_dssp EEESS-----SSH----------------HHHHHHHHHTT-STT------BHHHHHHHHHHHHH
T ss_pred Eecce---eEecc----------------hHHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHH
Confidence 55543 34432 14556666665443221 1288998887777554
No 12
>COG4249 Uncharacterized protein containing caspase domain [General function prediction only]
Probab=59.12 E-value=7.2 Score=40.38 Aligned_cols=60 Identities=20% Similarity=0.431 Sum_probs=37.8
Q ss_pred CCCeEEEEeecCCCCC-------ccCCCCC--------C-CCCHHHHHHHHHHHHHhcCCCcEEEEEecccccccccccC
Q 016176 67 ANDRIFIFYSDHGGPG-------VLGMPNM--------P-YVYAMEFIDVLKKKHAAKSYKGMVIYVEACESGSIFEGVM 130 (394)
Q Consensus 67 ~~D~VfiY~tdHG~~g-------~l~fp~~--------~-~l~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgSm~~~~l 130 (394)
+.|+++.||+|||... ++.|-.. + -+.... ....+|. ..-++-+..+++|.+|.+|....
T Consensus 132 ~~d~~~~~fsG~g~~~~~d~~~~lia~~t~p~~~a~~~~~~~s~~~---~~~~~~~-~~~~~ql~~~d~~~~~~~~~~~~ 207 (380)
T COG4249 132 PADTILFFFSGHGATPGADGRAYLIAFDTRPGAVAYDGEGGISPYS---VAQALHL-SEPGNQLVDLDACVRGDVFKATA 207 (380)
T ss_pred hhhhhhheeeccccccCCCCceeEEeecCChhhhcccCCCcccHHH---HHHHHHh-ccCCceeehhhhhcchhhhcccc
Confidence 3699999999999962 3333111 1 122222 2333333 44566678899999999998754
No 13
>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=56.32 E-value=10 Score=37.55 Aligned_cols=100 Identities=20% Similarity=0.405 Sum_probs=65.7
Q ss_pred CCeEeeCCCC--------CCccCCcCccCCCCCCC----HHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCCC
Q 016176 14 PGVIINHPQG--------ENLYDGVPKDYTGEHVT----AQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGGP 81 (394)
Q Consensus 14 pG~i~n~~~g--------~nvY~gv~iDY~g~~Vt----~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~~ 81 (394)
||+|.+- || .++|+-..|+-.|.-|. |+.+...|.--. |+ | +-+|||-|
T Consensus 104 PGrVLHi-DGD~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~--------------PD--I-lViTGHD~- 164 (283)
T TIGR02855 104 PGRVLHI-DGDPEYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVR--------------PD--I-LVITGHDA- 164 (283)
T ss_pred CCcEEee-cCCHHHHHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhC--------------CC--E-EEEeCchh-
Confidence 9999874 45 36776444444454443 666666666222 11 2 45789954
Q ss_pred CccC----CCC-CCCCCHHHHHHHHHHHHHhc-CCCcEEEEEecccccccccccCCCCCC
Q 016176 82 GVLG----MPN-MPYVYAMEFIDVLKKKHAAK-SYKGMVIYVEACESGSIFEGVMPKDLD 135 (394)
Q Consensus 82 g~l~----fp~-~~~l~~~dl~~~l~~M~~~~-~y~~~v~~ieaC~SgSm~~~~l~~~~n 135 (394)
+++ |.| ..+-.+..+.++++...+-. -+-+||++.-||| |-||.+|...-|
T Consensus 165 -~~K~~~d~~dl~~YrnSkyFVeaVk~aR~y~~~~D~LVIFAGACQ--S~yEall~AGAN 221 (283)
T TIGR02855 165 -YSKNKGNYMDLNAYRHSKYFVETVREARKYVPSLDQLVIFAGACQ--SHFESLIRAGAN 221 (283)
T ss_pred -hhcCCCChhhhhhhhhhHHHHHHHHHHHhcCCCcccEEEEcchhH--HHHHHHHHcCcc
Confidence 333 222 23678899999999876643 6779999999999 578888765555
No 14
>PF12554 MOZART1: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR022214 This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 105 amino acids in length. There is a single completely conserved residue L that may be functionally important.
Probab=43.87 E-value=39 Score=24.85 Aligned_cols=26 Identities=12% Similarity=0.362 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHhcCCCHHHHHHHHHh
Q 016176 350 MKHMRAFANICNSGVSQALMEETSEA 375 (394)
Q Consensus 350 lkylrvLaNLCe~G~~~~~i~~Ai~~ 375 (394)
...+.....||+.|+.++.....|..
T Consensus 21 ~etL~ici~L~e~GVnPeaLA~vI~e 46 (48)
T PF12554_consen 21 RETLSICIELCENGVNPEALAAVIKE 46 (48)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence 45678899999999999888877764
No 15
>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=38.61 E-value=25 Score=35.05 Aligned_cols=101 Identities=25% Similarity=0.506 Sum_probs=65.2
Q ss_pred CCCeEeeCCCC--------CCccCCcCccCCCCCCC----HHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCC
Q 016176 13 RPGVIINHPQG--------ENLYDGVPKDYTGEHVT----AQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGG 80 (394)
Q Consensus 13 ~pG~i~n~~~g--------~nvY~gv~iDY~g~~Vt----~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~ 80 (394)
.||+|.+- || .++|+-.-|+=.|..|. |+.+..+|.--.+ + | +-+|||=|
T Consensus 104 ~PGkVLHl-DGD~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~P--------------D--I-lViTGHD~ 165 (287)
T PF05582_consen 104 RPGKVLHL-DGDEEYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRP--------------D--I-LVITGHDG 165 (287)
T ss_pred CCCeEEEe-cCCHHHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCC--------------C--E-EEEeCchh
Confidence 69998874 44 36776444444555554 5666666652221 1 2 45799965
Q ss_pred CCccC----CCC-CCCCCHHHHHHHHHHHHH-hcCCCcEEEEEecccccccccccCCCCCC
Q 016176 81 PGVLG----MPN-MPYVYAMEFIDVLKKKHA-AKSYKGMVIYVEACESGSIFEGVMPKDLD 135 (394)
Q Consensus 81 ~g~l~----fp~-~~~l~~~dl~~~l~~M~~-~~~y~~~v~~ieaC~SgSm~~~~l~~~~n 135 (394)
+++ |-| ..+=.+..+.++.+...+ ..-+-+||++.-||| |-||.+|...-|
T Consensus 166 --~~K~~~d~~dl~~YrnSkyFVeaV~~aR~~ep~~D~LVIfAGACQ--S~fEall~AGAN 222 (287)
T PF05582_consen 166 --YLKNKKDYSDLNNYRNSKYFVEAVKEARKYEPNLDDLVIFAGACQ--SHFEALLEAGAN 222 (287)
T ss_pred --hhcCCCChhhhhhhhccHHHHHHHHHHHhcCCCcccEEEEcchhH--HHHHHHHHcCcc
Confidence 332 222 235678899999988765 446778999999999 578888765555
No 16
>PRK10649 hypothetical protein; Provisional
Probab=26.94 E-value=37 Score=37.01 Aligned_cols=18 Identities=22% Similarity=0.676 Sum_probs=14.4
Q ss_pred cCCCCCeEEEEeecCCCC
Q 016176 64 NSKANDRIFIFYSDHGGP 81 (394)
Q Consensus 64 ~s~~~D~VfiY~tdHG~~ 81 (394)
+...++.++||++|||..
T Consensus 448 k~~~~nt~iiy~SDHGe~ 465 (577)
T PRK10649 448 KATDPNGFLVYFSDHGEE 465 (577)
T ss_pred hcCCCCeEEEEECCCCcc
Confidence 334578999999999975
No 17
>PF03415 Peptidase_C11: Clostripain family This family belongs to family C11 of the peptidase classification.; InterPro: IPR005077 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 C11 (clostripain family, clan CD). ; PDB: 3UWS_A.
Probab=24.61 E-value=48 Score=34.41 Aligned_cols=72 Identities=22% Similarity=0.278 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCCC---------CccCCCC---CCCCCHHHHHHHHHHH
Q 016176 37 EHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGGP---------GVLGMPN---MPYVYAMEFIDVLKKK 104 (394)
Q Consensus 37 ~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~~---------g~l~fp~---~~~l~~~dl~~~l~~M 104 (394)
+..+|+.+-.+|. . +.+.=|-++-.+-|.|||+- .-+++.+ +..|+-.||.++|+
T Consensus 76 nm~dp~tL~~fi~-~----------~~~~yPA~~y~LIlw~HG~Gw~~~~~~~~rg~~~D~~~~~~~l~i~el~~aL~-- 142 (397)
T PF03415_consen 76 NMGDPDTLSDFIN-W----------AKENYPADRYGLILWDHGGGWLPASDSSTRGIGFDETSGGDYLSIPELAEALE-- 142 (397)
T ss_dssp -TTSHHHHHHHHH-H----------HHHHS-ECEEEEEEES-B-TT--TTGGG---EEEETTE---EE-HHHHHHHS---
T ss_pred CCCCHHHHHHHHH-H----------HHHhCCcccEEEEEEECCCCCCcCCCCCcceEecCCCChhhcccHHHHHHHHc--
Confidence 5777998888887 1 22335667788888999962 2344433 23699999999999
Q ss_pred HHhcCCCcE-EEEEeccccccc
Q 016176 105 HAAKSYKGM-VIYVEACESGSI 125 (394)
Q Consensus 105 ~~~~~y~~~-v~~ieaC~SgSm 125 (394)
. -.++ ++..|||.-|++
T Consensus 143 -~---~~~~d~I~FDaClM~~v 160 (397)
T PF03415_consen 143 -G---GPKFDFIGFDACLMGSV 160 (397)
T ss_dssp -----TT-EEEEEEESTT--BH
T ss_pred -C---CCCCcEEEECcccchhH
Confidence 1 1233 566799999886
No 18
>KOG1387 consensus Glycosyltransferase [Cell wall/membrane/envelope biogenesis]
Probab=24.47 E-value=69 Score=33.27 Aligned_cols=36 Identities=19% Similarity=0.427 Sum_probs=26.2
Q ss_pred CccCCCC-CCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEe
Q 016176 31 PKDYTGE-HVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFY 75 (394)
Q Consensus 31 ~iDY~g~-~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~ 75 (394)
-+=|+|+ +|||+++|+=.+.+.+ +.-+++.-.|||+
T Consensus 79 ~viYsGD~n~t~~~IL~k~k~~F~---------idlDs~nI~Fi~L 115 (465)
T KOG1387|consen 79 IVIYSGDFNVTPENILNKVKNKFD---------IDLDSDNIFFIYL 115 (465)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhcC---------ceecccceEEEEE
Confidence 4689999 9999999876664432 3446666677876
No 19
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=24.16 E-value=78 Score=30.02 Aligned_cols=62 Identities=19% Similarity=0.284 Sum_probs=38.3
Q ss_pred CcCc-cCCCCCCCHHHHHHHHcCCCCCccCCCCceecCCCCCeEEEEeecCCC---------CCccCCCCCCCCCHHHHH
Q 016176 29 GVPK-DYTGEHVTAQNLYAVLLGDRKAVKGGSGKVVNSKANDRIFIFYSDHGG---------PGVLGMPNMPYVYAMEFI 98 (394)
Q Consensus 29 gv~i-DY~g~~Vt~~nfl~vL~G~~~~~~~~s~kvl~s~~~D~VfiY~tdHG~---------~g~l~fp~~~~l~~~dl~ 98 (394)
||.| |-+-...+--.|.+-|..... +-=-||+||||- .|-+-|=..+ +..++|.
T Consensus 50 GclllDvrMPg~sGlelq~~L~~~~~---------------~~PVIfiTGhgDIpmaV~AmK~GAvDFLeKP-~~~q~Ll 113 (202)
T COG4566 50 GCLLLDVRMPGMSGLELQDRLAERGI---------------RLPVIFLTGHGDIPMAVQAMKAGAVDFLEKP-FSEQDLL 113 (202)
T ss_pred CeEEEecCCCCCchHHHHHHHHhcCC---------------CCCEEEEeCCCChHHHHHHHHcchhhHHhCC-CchHHHH
Confidence 4532 555555555555555554432 223478999997 3544444443 8899999
Q ss_pred HHHHHHHH
Q 016176 99 DVLKKKHA 106 (394)
Q Consensus 99 ~~l~~M~~ 106 (394)
++++...+
T Consensus 114 dav~~Al~ 121 (202)
T COG4566 114 DAVERALA 121 (202)
T ss_pred HHHHHHHH
Confidence 99998765
No 20
>COG2194 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]
Probab=22.44 E-value=48 Score=36.12 Aligned_cols=18 Identities=33% Similarity=0.800 Sum_probs=13.4
Q ss_pred ecCCCCCeEEEEeecCCC
Q 016176 63 VNSKANDRIFIFYSDHGG 80 (394)
Q Consensus 63 l~s~~~D~VfiY~tdHG~ 80 (394)
|+....+.++||+||||-
T Consensus 439 Lk~~~~~~~liY~SDHGE 456 (555)
T COG2194 439 LKDKKDNTSLIYFSDHGE 456 (555)
T ss_pred HHhCCCCeEEEEEcCccH
Confidence 333334889999999995
No 21
>PRK09598 lipid A phosphoethanolamine transferase; Reviewed
Probab=20.76 E-value=55 Score=35.32 Aligned_cols=17 Identities=29% Similarity=0.597 Sum_probs=13.2
Q ss_pred CCCCCeEEEEeecCCCC
Q 016176 65 SKANDRIFIFYSDHGGP 81 (394)
Q Consensus 65 s~~~D~VfiY~tdHG~~ 81 (394)
..+.+.++||+||||..
T Consensus 426 ~~~~~t~iIy~SDHGe~ 442 (522)
T PRK09598 426 NLKQPALMIYLSDHGES 442 (522)
T ss_pred hCCCCeEEEEEccCccc
Confidence 33348999999999953
No 22
>PF07999 RHSP: Retrotransposon hot spot protein; InterPro: IPR006518 These sequences are full-length and part-length members of the RHS (retrotransposon hot spot) family in Trypanosoma brucei and Trypanosoma cruzi. Members of this family are frequently interrupted by non-LTR retrotransposons inserted at exactly the same relative position.
Probab=20.25 E-value=5e+02 Score=27.53 Aligned_cols=101 Identities=16% Similarity=0.250 Sum_probs=63.2
Q ss_pred CHHHHHHHHHHHHHhcCCCcEEEEEecccccc-cccccCCCCCCEEEEeccCCCCccccccCCCCCCCCCCCcccchhhh
Q 016176 93 YAMEFIDVLKKKHAAKSYKGMVIYVEACESGS-IFEGVMPKDLDIYVTTASNAQESSFGTYCPGMDPSPPPEYITCLGDL 171 (394)
Q Consensus 93 ~~~dl~~~l~~M~~~~~y~~~v~~ieaC~SgS-m~~~~l~~~~nv~~~tas~~~EsSy~~~~~~~~~~~~~~~~t~lgD~ 171 (394)
...+-..+++.|...++ +=.+|.|.|..+. ....++|....++++|| |+++.|........ ...| ..+.
T Consensus 187 ~~~~a~~~i~~~~~~g~--~GyiI~Dv~~~~~~p~~~~~~~~Wg~ivlss--P~~~~~~~w~k~~~---~~~I---~iNC 256 (439)
T PF07999_consen 187 DQEAAVSVINEMSSRGV--KGYIIYDVAKKGHQPSPELPPRGWGMIVLSS--PNESNFEEWSKQRG---ALPI---YINC 256 (439)
T ss_pred CchHHHHHHHHHHhhCc--eEEEEEecccccCccCCCcccCCCCEEEEcC--CChhhcccccccCC---ceeE---EeeC
Confidence 35678889999976554 4567789998883 23346788899999987 56677776654311 0111 2233
Q ss_pred hh-------hhhhcccccC----CCccccHHHHHHHHHhhhcc
Q 016176 172 YS-------VAWMEDSETH----NLKRETISQQYQAVKERTSN 203 (394)
Q Consensus 172 fs-------~~wme~~~~~----~~~~~tl~~~~~~v~~~t~~ 203 (394)
+. ..||.-+... ....+.|.+-.+.|+.+...
T Consensus 257 ~d~~e~KA~~aW~r~~~~~~~~~~~a~~~~e~~W~~Ve~RI~~ 299 (439)
T PF07999_consen 257 YDEREVKAMCAWMRRSQLAEEQPEQAEVELENYWKEVEERIDE 299 (439)
T ss_pred CcHHHHHHHHHHHHhchhhcccchhhhhHHHHHHHHHHHHHHH
Confidence 32 3599755431 11235677788888888764
Done!