Query 037741
Match_columns 353
No_of_seqs 234 out of 1190
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 03:57:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037741.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037741hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0778 Protease, Ulp1 family 100.0 4.8E-52 1E-56 416.4 14.0 241 91-352 257-511 (511)
2 PLN03189 Protease specific for 100.0 5.9E-46 1.3E-50 369.9 20.8 216 118-351 251-489 (490)
3 COG5160 ULP1 Protease, Ulp1 fa 100.0 8.9E-38 1.9E-42 309.9 8.9 177 157-352 386-570 (578)
4 PF02902 Peptidase_C48: Ulp1 p 100.0 9.9E-31 2.1E-35 237.9 15.4 173 166-348 1-210 (216)
5 KOG3246 Sentrin-specific cyste 99.9 8.9E-24 1.9E-28 190.8 15.9 164 158-346 23-211 (223)
6 KOG0779 Protease, Ulp1 family 99.2 1.8E-11 3.8E-16 128.4 6.6 175 154-343 355-581 (595)
7 PRK11836 deubiquitinase; Provi 96.9 0.0031 6.6E-08 60.5 7.6 101 215-323 216-325 (403)
8 PF00770 Peptidase_C5: Adenovi 96.8 0.0047 1E-07 55.0 7.1 85 229-325 32-117 (183)
9 PF03290 Peptidase_C57: Vaccin 96.6 0.0062 1.4E-07 60.3 7.4 98 219-327 231-347 (423)
10 PRK14848 deubiquitinase SseL; 96.5 0.014 3E-07 55.1 8.4 86 220-325 189-276 (317)
11 PRK15371 effector protein YopJ 91.6 2.5 5.5E-05 41.0 11.4 140 162-326 39-187 (287)
12 PF03421 YopJ: YopJ Serine/Thr 87.7 2.3 5E-05 38.4 7.4 137 162-326 15-164 (177)
13 PF12252 SidE: Dot/Icm substra 44.7 53 0.0011 37.5 6.4 35 223-258 49-89 (1439)
14 KOG4110 NADH:ubiquinone oxidor 36.9 31 0.00067 28.8 2.5 59 292-351 18-95 (120)
15 KOG1552 Predicted alpha/beta h 30.9 14 0.00031 35.4 -0.4 51 8-59 34-105 (258)
16 PF14779 BBS1: Ciliary BBSome 26.9 48 0.001 31.8 2.4 33 40-72 59-102 (257)
17 PF05929 Phage_GPO: Phage caps 20.5 68 0.0015 31.1 2.1 60 12-72 13-86 (276)
No 1
>KOG0778 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.8e-52 Score=416.40 Aligned_cols=241 Identities=24% Similarity=0.418 Sum_probs=204.9
Q ss_pred CCccCCCCCCCCCCchhhHhHhhh-ccCcccCCCCCCCcchhHHHhhhhhcCCCceEEEeccCC--cchhhhcccCCCCc
Q 037741 91 PPVRRGQNVRPLPRPQIMEHAIDM-NTSVDVNPLRGLEDSSLFDEFDRWFTGDSRVRRRVQHPR--SFFQIILGTASMGW 167 (353)
Q Consensus 91 ~~~~~~~~~~p~~~~~~~e~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~dL~~L~~~~W 167 (353)
+.-++...++|+.. +-+.+++. ..+......+.+.++. -+++.+..++......++.+.+ -.-.||+||.+++|
T Consensus 257 e~~~~~~~~i~l~~--~~~k~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~i~It~~dl~tl~~~~W 333 (511)
T KOG0778|consen 257 EIFQKRGELIPLRS--VQEKLEKPKVEVKKEDSFPPLTEER-EAQVQRAFSSRNSTEILVTHFNIDITGKDLQTLRPGNW 333 (511)
T ss_pred hhcccccccchhhh--hhcccccccccccCccccccccHHH-HHHHHHHhccCCcccceehhccccccHHHHhhccCccc
Confidence 45556666777765 55555554 3333333444444443 3778888887777777665443 23449999999999
Q ss_pred cChHHHHHHHHHHHHHhhcCCcccCCceEEEchhhHhhhhhcccc--------cccccccceEEEeecCCCCceEEEEEE
Q 037741 168 LGDEHIHEYLRLISEKQQQYPNALLQHVTHTDTFFWLSLWVTAHN--------VKIMTDVDMLLIPVNLDGSHWVLARVD 239 (353)
Q Consensus 168 LND~VIn~y~~lL~~~~~~~~~~~~~~v~~fnsff~~~L~~~gy~--------v~lf~d~d~I~iPIn~~~~HW~LlVId 239 (353)
|||+||||||+||+++..+++. +|+||+||||||++|.+.||. ++||+ +|+||||||. +.||+|+|||
T Consensus 334 LNDevINfYm~ll~ers~~~~~--yp~~h~FnTFFy~kL~~~gy~~VkRWTk~v~if~-~d~i~vPIH~-~vHW~l~vid 409 (511)
T KOG0778|consen 334 LNDEVINFYMELLKERSKKDSK--YPKVHAFNTFFYTKLVGRGYAGVKRWTKKVDIFD-KDIIFVPIHL-GVHWCLAVID 409 (511)
T ss_pred hhHHHHHHHHHHHHhhccccCC--CceEEEEechhhhhhhhcchHHHHhHhhccCccc-cceeEeeeec-CceEEEEEEE
Confidence 9999999999999999888776 899999999999999999995 89999 9999999999 9999999999
Q ss_pred ccCCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCC---CeEEeeeCCCCCCCCCCCCcHHHHH
Q 037741 240 FRKNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEY---PWKVIAVKSAPQQEPGTGDCGVFVL 316 (353)
Q Consensus 240 ~~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~---~w~~~~~~~vPqQ~Ngt~DCGVFvl 316 (353)
+++++|.|||||++...+. ++.| ++||.+|+..+. +.++ .|++..+.++|||.|| +|||||+|
T Consensus 410 ~r~k~i~y~DS~~~~~nr~-----~~aL-------~~Yl~~E~~~k~-~~~~d~s~w~~~~~~~iP~Q~Ng-~DCG~f~c 475 (511)
T KOG0778|consen 410 LREKTIEYYDSLGGGPNRI-----CDAL-------AKYLQDESRDKS-KKDFDVSGWTIEFVQNIPQQRNG-SDCGMFVC 475 (511)
T ss_pred cccceEEEeeccCCCCcch-----HHHH-------HHHHHHHHhhhh-cCCCCccchhhhhhhccccccCC-CccceEEe
Confidence 9999999999999887776 7777 999999999988 8887 8999988999999999 99999999
Q ss_pred HHHHHHHCCCCcccChhhHHHHHHHHHHHHHhCCcC
Q 037741 317 MVTMYLMFGLRFEFNASHVEYFRKKITVDIFNDDII 352 (353)
Q Consensus 317 ~~ae~l~~~~~~~ftq~dm~~~R~~m~~eLl~~~l~ 352 (353)
+|++|++++.|++|+|+||++||++|++|||+++|+
T Consensus 476 ~~~~~~s~~~p~~ftq~dmp~fR~~m~~eI~~~~l~ 511 (511)
T KOG0778|consen 476 KYADYISRDVPLTFTQQDMPYFRKKMAKEILHLKLL 511 (511)
T ss_pred eechhhccCCCcccChhhhHHHHHHHHHHHHhhhcC
Confidence 999999999999999999999999999999999985
No 2
>PLN03189 Protease specific for SMALL UBIQUITIN-RELATED MODIFIER (SUMO); Provisional
Probab=100.00 E-value=5.9e-46 Score=369.89 Aligned_cols=216 Identities=25% Similarity=0.413 Sum_probs=182.8
Q ss_pred cccCCCCCCCcchhHHHhhhhhcCCCceEEEeccCCcc----hhhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccCC
Q 037741 118 VDVNPLRGLEDSSLFDEFDRWFTGDSRVRRRVQHPRSF----FQIILGTASMGWLGDEHIHEYLRLISEKQQQYPNALLQ 193 (353)
Q Consensus 118 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~----~~dL~~L~~~~WLND~VIn~y~~lL~~~~~~~~~~~~~ 193 (353)
+...+.+++.++.. +++++++++.+...+++.+.... .+||.||.+++||||+|||||+++|.++...++.. .+
T Consensus 251 ~~~~~~~pLT~e~~-~~V~~al~~~~~~~vlvs~~~~~i~IT~~DL~~L~Pg~WLNDeVINfYm~LL~er~~~~p~~-~~ 328 (490)
T PLN03189 251 VPREPFIPLTREEE-TEVKRAFSANNRRKVLVTHENSNIDITGEILRCLKPGAWLNDEVINLYLELLKEREAREPKK-FL 328 (490)
T ss_pred cccccCcCCCHHHH-HHHHHHhcCCCccceeeecCCCceEEEHHHhhccCCCCccCHHHHHHHHHHHHHhhhcCccc-cc
Confidence 44455566666656 78889888888666666555433 36999999999999999999999999876655543 68
Q ss_pred ceEEEchhhHhhhhhc----ccc------------cccccccceEEEeecCCCCceEEEEEEccCCceeeeccCCCCCch
Q 037741 194 HVTHTDTFFWLSLWVT----AHN------------VKIMTDVDMLLIPVNLDGSHWVLARVDFRKNKVWIYDSLLTFCDD 257 (353)
Q Consensus 194 ~v~~fnsff~~~L~~~----gy~------------v~lf~d~d~I~iPIn~~~~HW~LlVId~~~~~I~~yDSL~~~~~~ 257 (353)
+||+||||||++|.+. ||+ +++|+ +|+||||||. +.||+|+|||++.++|.|||||++.+..
T Consensus 329 k~h~FNTFFytkL~~~~~~ygY~~VrRWTk~kKigv~Lfs-~D~IFIPIh~-n~HWsLaVId~k~k~I~yyDSLgg~~~~ 406 (490)
T PLN03189 329 KCHFFNTFFYKKLVSGKSGYDYKAVRRWTTQKKLGYHLID-CDKIFVPIHQ-EIHWTLAVINKKDQKFQYLDSLKGRDPK 406 (490)
T ss_pred ceEEEehHHHHHHhhcCCcCChHHHHHHhhhccccccccc-CceEEeeeec-CCeeEEEEEEcCCCeEEEEeCCCCCCHH
Confidence 9999999999999985 453 35677 9999999998 8999999999999999999999988766
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCC---CeEEeeeCCCCCCCCCCCCcHHHHHHHHHHHHCCCCcccChhh
Q 037741 258 KRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEY---PWKVIAVKSAPQQEPGTGDCGVFVLMVTMYLMFGLRFEFNASH 334 (353)
Q Consensus 258 ~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~---~w~~~~~~~vPqQ~Ngt~DCGVFvl~~ae~l~~~~~~~ftq~d 334 (353)
+ ++.| .+|+..|++++. +.++ .|......++|||.|| +|||||||+||+|+++|.+++|+|+|
T Consensus 407 v-----L~~L-------~rYL~~E~kdK~-g~d~D~s~W~~~~~~~vPQQ~NG-~DCGVFVL~yAE~~SrG~~LtFSQeD 472 (490)
T PLN03189 407 I-----LDAL-------AKYYVDEVKDKS-EKDIDVSSWEQEFVEDLPEQKNG-YDCGMFMIKYIDFYSRGLGLCFGQEH 472 (490)
T ss_pred H-----HHHH-------HHHHHHHHhhhc-CCCcchhcceeccCCCCCCCCCC-CCHHHHHHHHHHHHcCCCCCCcChhh
Confidence 5 6666 999999988776 5555 7887656789999999 99999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhCCc
Q 037741 335 VEYFRKKITVDIFNDDI 351 (353)
Q Consensus 335 m~~~R~~m~~eLl~~~l 351 (353)
|++||++|+.||++.++
T Consensus 473 Mp~fRrRma~EIl~~r~ 489 (490)
T PLN03189 473 MPYFRLRTAKEILRLKA 489 (490)
T ss_pred hHHHHHHHHHHHHHhhc
Confidence 99999999999999875
No 3
>COG5160 ULP1 Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.9e-38 Score=309.92 Aligned_cols=177 Identities=27% Similarity=0.387 Sum_probs=155.8
Q ss_pred hhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccCCceEEEchhhHhhhhhcccc--------cccccccceEEEeecC
Q 037741 157 QIILGTASMGWLGDEHIHEYLRLISEKQQQYPNALLQHVTHTDTFFWLSLWVTAHN--------VKIMTDVDMLLIPVNL 228 (353)
Q Consensus 157 ~dL~~L~~~~WLND~VIn~y~~lL~~~~~~~~~~~~~~v~~fnsff~~~L~~~gy~--------v~lf~d~d~I~iPIn~ 228 (353)
+|+.||.+++||||+||||||++|......... .++||.||||||++|...||. +++|+ +++||||||.
T Consensus 386 ~D~~~L~~~~wLNDtIIdFy~k~ls~~sk~~s~--~~~vh~FnTFFYT~LsrrGy~gVrrW~kk~dif~-~k~I~iPIni 462 (578)
T COG5160 386 QDFKRLRNGDWLNDTIIDFYMKLLSKISKNTSK--REQVHLFNTFFYTKLSRRGYSGVRRWTKKTDIFS-KKYIFIPINI 462 (578)
T ss_pred HhhhhhccccchhhHHHHHHHHHHHHhccCccc--ccceEEeehhhHHHHHHHHhHHHHHHHhccCccc-cceEEEEecc
Confidence 499999999999999999999999665443332 689999999999999999985 89999 9999999999
Q ss_pred CCCceEEEEEEccCCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCeEEeeeCCCCCCCCCC
Q 037741 229 DGSHWVLARVDFRKNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEYPWKVIAVKSAPQQEPGT 308 (353)
Q Consensus 229 ~~~HW~LlVId~~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~~w~~~~~~~vPqQ~Ngt 308 (353)
..||+|+|||.+++.|.|||||++....+ ++.| ..|+.+|++... +++ +|......++|||.||
T Consensus 463 -~~HW~l~II~~~~~~i~~~DSLan~~~~v-----~~~L-------~~Y~ldE~k~~~-~k~-~~~~~~~~~vPqQ~Ng- 526 (578)
T COG5160 463 -SYHWFLAIIDNPKKNILYFDSLANTHDPV-----LEFL-------RSYLLDEYKIQH-DKD-PQIKMKHCKVPQQRNG- 526 (578)
T ss_pred -cceEEEEEeecCcceeEEecccccCcHHH-----HHHH-------HHHHHHHHhccc-CCc-hhhhhhcCCCCCCCCC-
Confidence 99999999999999999999999988666 6667 999999977654 333 3443334689999999
Q ss_pred CCcHHHHHHHHHHHHCCCCcccChhhHHHHHHHHHHHHHhCCcC
Q 037741 309 GDCGVFVLMVTMYLMFGLRFEFNASHVEYFRKKITVDIFNDDII 352 (353)
Q Consensus 309 ~DCGVFvl~~ae~l~~~~~~~ftq~dm~~~R~~m~~eLl~~~l~ 352 (353)
+|||||||++++|++.+.|..|++.||+++|+.|+++|+..+|.
T Consensus 527 ~DCGV~vc~~~~~~~~~~p~~f~~nd~~r~Rk~m~h~i~~~qi~ 570 (578)
T COG5160 527 SDCGVFVCMFIRYFLENPPEQFSKNDRPRARKNMAHTIKDLQIN 570 (578)
T ss_pred CccceEEEEeeeecccCChhhcCccchHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999988764
No 4
>PF02902 Peptidase_C48: Ulp1 protease family, C-terminal catalytic domain This family belongs to family C48 of the peptidase classification.; InterPro: IPR003653 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 proteins contain cysteine peptidases belonging to MEROPS peptidase family C48 (Ulp1 endopeptidase family, clan CE). The protein fold of the peptidase domain for members of this family resembles that of adenain, the type example for clan CE. This group of sequences also contains a number of hypothetical proteins, which have not yet been characterised, and non-peptidase homologues. These are proteins that have either been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of the peptidases in the family. The Ulp1 endopeptidase family contain the deubiquitinating enzymes (DUB) that can de-conjugate ubiquitin or ubiquitin-like proteins from ubiquitin-conjugated proteins. They can be classified in 3 families according to sequence homology [, ]: Ubiquitin carboxyl-terminal hydrolase (UCH) (see PDOC00127 from PROSITEDOC), Ubiquitin-specific processing protease (UBP) (see PDOC00750 from PROSITEDOC), and ubiquitin-like protease (ULP) specific for de-conjugating ubiquitin-like proteins. In contrast to the UBP pathway, which is very redundant (16 UBP enzymes in yeast), there are few ubiquitin-like proteases (only one in yeast, Ulp1). Ulp1 catalyses two critical functions in the SUMO/Smt3 pathway via its cysteine protease activity. Ulp1 processes the Smt3 C-terminal sequence (-GGATY) to its mature form (-GG), and it de-conjugates Smt3 from the lysine epsilon-amino group of the target protein []. Crystal structure of yeast Ulp1 bound to Smt3 [] revealed that the catalytic and interaction interface is situated in a shallow and narrow cleft where conserved residues recognise the Gly-Gly motif at the C-terminal extremity of Smt3 protein. Ulp1 adopts a novel architecture despite some structural similarity with other cysteine protease. The secondary structure is composed of seven alpha helices and seven beta strands. The catalytic domain includes the central alpha helix, beta-strands 4 to 6, and the catalytic triad (Cys-His-Asp). This profile is directed against the C-terminal part of ULP proteins that displays full proteolytic activity [].; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 1EUV_A 2HL8_A 2HKP_A 2HL9_A 1XT9_A 2BKQ_C 2BKR_A 2IO1_E 1TH0_B 1TGZ_A ....
Probab=99.97 E-value=9.9e-31 Score=237.90 Aligned_cols=173 Identities=29% Similarity=0.572 Sum_probs=124.0
Q ss_pred CccChHHHHHHHHHHHHHhhcCCcccCCceEEEchhhHhhhh--------------------hcccc--------c---c
Q 037741 166 GWLGDEHIHEYLRLISEKQQQYPNALLQHVTHTDTFFWLSLW--------------------VTAHN--------V---K 214 (353)
Q Consensus 166 ~WLND~VIn~y~~lL~~~~~~~~~~~~~~v~~fnsff~~~L~--------------------~~gy~--------v---~ 214 (353)
+||||+|||+|+++|.+....+.. ..+++++++|+|++++. ...++ . +
T Consensus 1 ~wLnd~iId~y~~~l~~~~~~~~~-~~~~~~~~~~~f~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (216)
T PF02902_consen 1 EWLNDSIIDFYLEYLRHRLESENK-NSKRVHFFSSFFYQKLTECFKQFKKDKERSKFKWNESKDFYNGVQRWFRKKNKKN 79 (216)
T ss_dssp --EEHHHHHHHHHHHHHHTCCTHH-TSTTEEEE-THHHHHHH----HHHCCH--S-----HHHHCHHHCGGGGTTCCTST
T ss_pred CcCCHHHHHHHHHHHHHhhccCcc-CCCcEEEECceeeeccccccccccccccccccchhhhhHhhhhhhhhhhcccccc
Confidence 699999999999999866432111 15799999999999988 11111 2 5
Q ss_pred cccccceEEEeecCCCCceEEEEEEccCCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCC-CCCC-C
Q 037741 215 IMTDVDMLLIPVNLDGSHWVLARVDFRKNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPEL-RSEY-P 292 (353)
Q Consensus 215 lf~d~d~I~iPIn~~~~HW~LlVId~~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l-~~~~-~ 292 (353)
++. +++|++|||.+++||+|+|||++.++|.+||||++....... . ..+..+..+|..++..... ..+. +
T Consensus 80 l~~-~~~i~iPin~~~~HW~l~vi~~~~~~i~~~DSl~~~~~~~~~---~----~~~~~~~~~l~~~~~~~~~~~~~~~~ 151 (216)
T PF02902_consen 80 LFD-KDYIFIPININNNHWVLLVIDLPKKRIYVYDSLGSSNNDKRY---K----RVIENIIPFLKREYKKKEGRDPDKSP 151 (216)
T ss_dssp GGG-SSEEEEEEEETTTEEEEEEEETTTTEEEEE-TTSTSSH-HHH---H----HHHHHHHHHHHHHHHHHHSSCT-TTT
T ss_pred ccc-cCEEEEEEechhhccceeEEcccccEEEEEeccccccccccc---h----hhhhhhhhhhhhccccccccccccce
Confidence 566 999999999999999999999999999999999988771111 1 2222335555444322110 1111 6
Q ss_pred eEEeeeCCCCCCCCCCCCcHHHHHHHHHHHHCCCCcc----cChhhHHHHHHHHHHHHHh
Q 037741 293 WKVIAVKSAPQQEPGTGDCGVFVLMVTMYLMFGLRFE----FNASHVEYFRKKITVDIFN 348 (353)
Q Consensus 293 w~~~~~~~vPqQ~Ngt~DCGVFvl~~ae~l~~~~~~~----ftq~dm~~~R~~m~~eLl~ 348 (353)
|.......+|||.|+ +|||+|||+||++++.+.+.+ +++++|..+|++++.+|.+
T Consensus 152 ~~~~~~~~~pqQ~n~-~dCGv~vl~~~~~~~~~~~~~~~~~l~~~~i~~~r~~~a~~~~e 210 (216)
T PF02902_consen 152 FKIVRPPNVPQQPNG-YDCGVYVLKFMECLLEGPSFDFSQELTEEDIKNFRKKLAVDLYE 210 (216)
T ss_dssp CEEEEECTS-SSSSS-SCHHHHHHHHHHHHHCTHHSTGCCSBTGHHHHHHHHHHHH----
T ss_pred eeecccccccCCCCC-CCcHHHHHHHHHHHHhCCCCcccccCCHHHHHHHHHHHHhhccc
Confidence 777767799999999 999999999999999998775 7999999999999976544
No 5
>KOG3246 consensus Sentrin-specific cysteine protease (Ulp1 family) [General function prediction only]
Probab=99.91 E-value=8.9e-24 Score=190.83 Aligned_cols=164 Identities=20% Similarity=0.214 Sum_probs=113.0
Q ss_pred hhcccCCCCccChHHHHHHHHHHHHHhhcCCcccCCceEEEchhhHhhhhhccc--------c-cccccccceEEEeecC
Q 037741 158 IILGTASMGWLGDEHIHEYLRLISEKQQQYPNALLQHVTHTDTFFWLSLWVTAH--------N-VKIMTDVDMLLIPVNL 228 (353)
Q Consensus 158 dL~~L~~~~WLND~VIn~y~~lL~~~~~~~~~~~~~~v~~fnsff~~~L~~~gy--------~-v~lf~d~d~I~iPIn~ 228 (353)
|+.-|++..||||.+|+||.++|....... .+..+++++-....+...+- . .++.. +++||+|||.
T Consensus 23 DVdlL~~p~wlnD~~I~F~~e~l~~~~~~s----~~~~~ll~P~~t~~l~~~~~~~e~~~~~~pl~l~~-k~~iflpiND 97 (223)
T KOG3246|consen 23 DVDLLQPPEWLNDRLIDFYYEYLEHRRSRS----EPDLHLLRPSLTFFLRHAPNPEEIAMVLDPLDLND-KDFIFLPIND 97 (223)
T ss_pred hhhhcCCCchhhhhHHHHHHHHHHHhhccc----CcchhccCHHHHHHHHhCCCcHHHHHhcChhhcCC-CceEEEEecC
Confidence 788889999999999999999999875433 34467776543333332221 1 47777 9999999998
Q ss_pred --------CCCceEEEEEEccCCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCeEEeeeCC
Q 037741 229 --------DGSHWVLARVDFRKNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEYPWKVIAVKS 300 (353)
Q Consensus 229 --------~~~HW~LlVId~~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~~w~~~~~~~ 300 (353)
||+||+|+|++.+++++++|||+.+.+... ++.+ ++++...+..+. .......
T Consensus 98 n~~~~~~~GGsHWSLLV~sr~~~~f~hyDS~~n~nt~~-----a~~l---~~kl~~ll~~~~-----------~~~~~~~ 158 (223)
T KOG3246|consen 98 NSNVTRASGGSHWSLLVFSRPDGKFYHYDSLSNGNTKD-----AKSL---MKKLRALLKKKF-----------AKRVECK 158 (223)
T ss_pred CCcccccCCCcceEEEEEEeeCCcEEEeecccCCCcHH-----HHHH---HHHHHHHHhhhh-----------hhccccc
Confidence 457999999999999999999999998765 3333 333355553211 1110357
Q ss_pred CCCCCCCCCCcHHHHHHHHHHHH----CCCCcccChh----hHHHHHHHHHHHH
Q 037741 301 APQQEPGTGDCGVFVLMVTMYLM----FGLRFEFNAS----HVEYFRKKITVDI 346 (353)
Q Consensus 301 vPqQ~Ngt~DCGVFvl~~ae~l~----~~~~~~ftq~----dm~~~R~~m~~eL 346 (353)
+|||+|| +|||+|||.+.+.++ ++.-.+-.+. -+..+|..+..-|
T Consensus 159 ~~qQqNg-yDCG~hV~~~t~~l~~~~~~~~~~~~~~~~~~~~i~~lr~~l~~LI 211 (223)
T KOG3246|consen 159 CLQQQNG-YDCGLHVCCNTRVLAERLLRCPYATSSQLLVVDLIKALREELLDLI 211 (223)
T ss_pred ChhhhcC-CchhHHHHHHHHHHHHHHhccccccccchhhHHHHHHHHHHHHHHH
Confidence 8999999 999999999976655 4433343333 4455555554333
No 6
>KOG0779 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.8e-11 Score=128.42 Aligned_cols=175 Identities=19% Similarity=0.203 Sum_probs=121.9
Q ss_pred cchhhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccCCceEEEchhhHhhhhhc----ccc----------------c
Q 037741 154 SFFQIILGTASMGWLGDEHIHEYLRLISEKQQQYPNALLQHVTHTDTFFWLSLWVT----AHN----------------V 213 (353)
Q Consensus 154 ~~~~dL~~L~~~~WLND~VIn~y~~lL~~~~~~~~~~~~~~v~~fnsff~~~L~~~----gy~----------------v 213 (353)
...+|+.||.++..|||.+++||++++....... .+..+.+|+|++|||..+.+. +-+ +
T Consensus 355 v~~~Dl~cl~~~e~L~d~i~dfyl~~i~~~~l~~-~~~s~~~h~f~tffyk~l~~~~~~~~~d~~~~~~~~~~~~~~~~~ 433 (595)
T KOG0779|consen 355 VNNNDLVCLEEGEFLNDTIKDFYLEYIRQYLLSQ-KELSNDRHIFSTFFYKRLCRKLRQKSNDQIQDNRAVRLRTWTRHF 433 (595)
T ss_pred eeccchhhccccchhhhhhhhhhhHHHHHhhhcc-cccCcchhhhhhHHHhhhhhhhhhhhhhhhhccccCceeeeeecc
Confidence 4566999999999999999999999999877664 333679999999999987762 100 7
Q ss_pred ccccccceEEEeecCCCCceEEEEEEccCC------ceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCC
Q 037741 214 KIMTDVDMLLIPVNLDGSHWVLARVDFRKN------KVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPEL 287 (353)
Q Consensus 214 ~lf~d~d~I~iPIn~~~~HW~LlVId~~~~------~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l 287 (353)
++|. +++|++|+|. ..||.+++++...+ .....+++........ ...+ ..++..++.....
T Consensus 434 d~~~-k~yi~~P~~E-~~hw~laiic~p~~e~es~~~~~~~~~~~~~~~~~~----~~~~-------~~~~~~~~~~~~~ 500 (595)
T KOG0779|consen 434 DLFN-KDYVFVPTHE-RFHWKLAIICNPDLETETPRPRLELLILKLSADFPI----VENI-------LDFMKVASIYNNE 500 (595)
T ss_pred cccc-ceeEEecCch-HhhhhccccccCccccCccccchhhhhhccccccch----hhhh-------hhhhhhcccccCc
Confidence 8888 9999999999 99999999987754 3334444443333221 2222 4444444443330
Q ss_pred ---CCCC--CeEEee--------eCCCCCCCCCCCCcHHHHHHHHHHHHCCCCc-------------ccChhhHHHHHHH
Q 037741 288 ---RSEY--PWKVIA--------VKSAPQQEPGTGDCGVFVLMVTMYLMFGLRF-------------EFNASHVEYFRKK 341 (353)
Q Consensus 288 ---~~~~--~w~~~~--------~~~vPqQ~Ngt~DCGVFvl~~ae~l~~~~~~-------------~ftq~dm~~~R~~ 341 (353)
..++ +|.+.. ....|||.|. +|||+|++.|++.+..+.+- .|.+.++..+|..
T Consensus 501 ~~~~~~~~~~~~~~~~~~~~~s~~v~~p~q~n~-~dcG~~~~~~v~~f~e~~~e~~~~~~~~~~~l~~~~~~~~~~~r~~ 579 (595)
T KOG0779|consen 501 LIVTEDLELEEELPRRLPRGKSETVREPQQNND-VDCGSFVLEFVERFIEDAPERFNIEDEGTINLEWFPPKEILKFRDE 579 (595)
T ss_pred ccccccccccccccccCcccccccccccCccCc-ccchhhHHHHHHHhhhChhhhcccccccccccccCCchHHhhhhhh
Confidence 1111 333211 0123899999 99999999999999876543 2777888888876
Q ss_pred HH
Q 037741 342 IT 343 (353)
Q Consensus 342 m~ 343 (353)
+-
T Consensus 580 ~r 581 (595)
T KOG0779|consen 580 IR 581 (595)
T ss_pred hh
Confidence 54
No 7
>PRK11836 deubiquitinase; Provisional
Probab=96.91 E-value=0.0031 Score=60.47 Aligned_cols=101 Identities=24% Similarity=0.353 Sum_probs=55.6
Q ss_pred cccccceEEEeecCCCCceEEEEEEc--------cCCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCC
Q 037741 215 IMTDVDMLLIPVNLDGSHWVLARVDF--------RKNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPE 286 (353)
Q Consensus 215 lf~d~d~I~iPIn~~~~HW~LlVId~--------~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~ 286 (353)
+|. ++.=++|||. ++||.|++... ++.+..+|.|+...+... -..+++++..+..-+..|.....
T Consensus 216 ~~~-k~~elFpINt-g~HWil~~l~Ki~~~~~~~ekiKC~IFNs~~~l~~d~-----~~t~q~ii~a~~~~~~~~~~~~~ 288 (403)
T PRK11836 216 SWP-KEVQLFPINT-GGHWILVSLQKIVNEKNNTQQIKCVIFNSLRALGHDK-----ENSLKRVINSFNSELMGEMSNNN 288 (403)
T ss_pred CCc-ccceEEEecC-CCcEEEEEeHHhhhcccccceeEEEEEecHhhhccch-----hhHHHHHHHhhhhhhhhhcchhh
Confidence 455 7888999997 99999998632 234566777776554332 12223333333333444433322
Q ss_pred CCCCC-CeEEeeeCCCCCCCCCCCCcHHHHHHHHHHHH
Q 037741 287 LRSEY-PWKVIAVKSAPQQEPGTGDCGVFVLMVTMYLM 323 (353)
Q Consensus 287 l~~~~-~w~~~~~~~vPqQ~Ngt~DCGVFvl~~ae~l~ 323 (353)
+.... +-.+.....--||.-. ..||.|||+.+.-++
T Consensus 289 ik~~~~e~ei~fie~dLQq~vp-ngCGlFv~~a~Qe~i 325 (403)
T PRK11836 289 IKVHLTEPEIIFLHADLQQYLS-QSCGAFVCMAAQEVI 325 (403)
T ss_pred hcccccCCceEEEechhhhcCC-CccceehHHHHHHHH
Confidence 12222 2222223333344344 789999998877443
No 8
>PF00770 Peptidase_C5: Adenovirus endoprotease; InterPro: IPR000855 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 aminopeptidases belong to the peptidase family C5 (adenain family, clan CE). Several adenovirus proteins are synthesised as precursors, requiring processing by a protease before the virion is assembled [, ]. Until recently, the adenovirus endopeptidase was classified as a serine protease, having been reported to be inhibited by serine protease inhibitors [, ]. However, it has since been shown to be inhibited by cysteine protease inhibitors, and the catalytic residues are believed to be His-54 and Cys-104 [, ].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1NLN_A 1AVP_A.
Probab=96.77 E-value=0.0047 Score=55.04 Aligned_cols=85 Identities=14% Similarity=0.244 Sum_probs=40.6
Q ss_pred CCCceEEEEEEccCCceeeeccCCCCCchhHHHHHHHHHHHH-HHHHHHHHhhhccCCCCCCCCCeEEeeeCCCCCCCCC
Q 037741 229 DGSHWVLARVDFRKNKVWIYDSLLTFCDDKRYKLKFKSLKVI-FPRWLEYVGFYNIRPELRSEYPWKVIAVKSAPQQEPG 307 (353)
Q Consensus 229 ~~~HW~LlVId~~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~-i~~l~~yL~~e~~~k~l~~~~~w~~~~~~~vPqQ~Ng 307 (353)
||.||.....|+..++++.||++|-.+.+ +.++-.+ -+.|++-=.-.+...+ -.+.+...+.-|=.++
T Consensus 32 GGvHWlA~Aw~P~s~t~YmFDPfGfsd~~------L~qiY~FeYe~llrRSAL~~~~dR-----Cv~LvkstqtVQ~p~S 100 (183)
T PF00770_consen 32 GGVHWLAFAWDPRSRTFYMFDPFGFSDQK------LKQIYQFEYEGLLRRSALSSTPDR-----CVTLVKSTQTVQCPCS 100 (183)
T ss_dssp --S-EEEEEEETTTTEEEEE-TT---HHH------HHHHH----HHHHHHHHHHH-TTS-----EEEEEEE-EE-S-TT-
T ss_pred CceeEEEEEecCCcceEEEeCCCCCCHHH------HHHHHhhhHHHHHHHHhhcCCCCc-----eEEEEeccceeeccCc
Confidence 68999999999999999999999877654 2222110 0111111000101111 1233322333444566
Q ss_pred CCCcHHHHHHHHHHHHCC
Q 037741 308 TGDCGVFVLMVTMYLMFG 325 (353)
Q Consensus 308 t~DCGVFvl~~ae~l~~~ 325 (353)
.-||+|.|.|+.++...
T Consensus 101 -aaCGLFC~lFL~aF~~~ 117 (183)
T PF00770_consen 101 -AACGLFCCLFLHAFVHY 117 (183)
T ss_dssp ---HHHHHHHHHHHHHH-
T ss_pred -hhHHHHHHHHHHHHHhC
Confidence 99999999999998754
No 9
>PF03290 Peptidase_C57: Vaccinia virus I7 processing peptidase; InterPro: IPR004970 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 is a group of cysteine peptidases which constitute MEROPS peptidase family C57 (clan CE). The type example is vaccinia virus I7 processing peptidase (vaccinia virus); protein I7 is expressed in the late phase of infection [].
Probab=96.60 E-value=0.0062 Score=60.32 Aligned_cols=98 Identities=13% Similarity=0.139 Sum_probs=62.9
Q ss_pred cceEEEeecCCCCceEEEEEEccCCceeeeccCCCCCchh-------------------HHHHHHHHHHHHHHHHHHHHh
Q 037741 219 VDMLLIPVNLDGSHWVLARVDFRKNKVWIYDSLLTFCDDK-------------------RYKLKFKSLKVIFPRWLEYVG 279 (353)
Q Consensus 219 ~d~I~iPIn~~~~HW~LlVId~~~~~I~~yDSL~~~~~~~-------------------~~~~~~~~L~~~i~~l~~yL~ 279 (353)
+.++.+|.+- .+||.++|+|.+++-+.+|||-|....+. .-...+...-.-+.-+.+|+.
T Consensus 231 ~RyvmFgfcY-~~Hwkc~IfDk~~~~v~FydSgG~~P~efhhy~nfyFysfs~gfn~n~~~~s~l~n~n~dIDVLfrfF~ 309 (423)
T PF03290_consen 231 KRYVMFGFCY-MSHWKCCIFDKEKKIVYFYDSGGNIPEEFHHYKNFYFYSFSDGFNRNNKSTSNLDNENCDIDVLFRFFE 309 (423)
T ss_pred ccEEEeeeee-hhcceEEEEeccccEEEEEcCCCCCHHHcCcCCceEEEEccCccccCCCcccccccccCchHHHHHHHH
Confidence 7899999999 99999999999999999999976543110 000001110111222366665
Q ss_pred hhccCCCCCCCCCeEEeeeCCCCCCCCCCCCcHHHHHHHHHHHHCCCC
Q 037741 280 FYNIRPELRSEYPWKVIAVKSAPQQEPGTGDCGVFVLMVTMYLMFGLR 327 (353)
Q Consensus 280 ~e~~~k~l~~~~~w~~~~~~~vPqQ~Ngt~DCGVFvl~~ae~l~~~~~ 327 (353)
.....+. .....--.|-.. ++||+|++.||-......|
T Consensus 310 d~f~~~~---------gciNvevnQl~e-seCGMF~~iFm~~c~~~pp 347 (423)
T PF03290_consen 310 DSFGVKY---------GCINVEVNQLLE-SECGMFISIFMILCTLTPP 347 (423)
T ss_pred hhcccce---------eEEEhhhhhhcc-cccchHHHHHHHHHHccCc
Confidence 5443322 111223458888 9999999999877776665
No 10
>PRK14848 deubiquitinase SseL; Provisional
Probab=96.47 E-value=0.014 Score=55.08 Aligned_cols=86 Identities=16% Similarity=0.267 Sum_probs=47.2
Q ss_pred ceEEEeecCCCCceEEEEEEc--cCCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCeEEee
Q 037741 220 DMLLIPVNLDGSHWVLARVDF--RKNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEYPWKVIA 297 (353)
Q Consensus 220 d~I~iPIn~~~~HW~LlVId~--~~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~~w~~~~ 297 (353)
+.=++|||. ++||.|++... .+.+..+|.|+...+... .+.+ +.. . -+..+.. .. + +..
T Consensus 189 ~nevF~INt-g~HWil~~~~Ki~~kiKC~iFNs~~~l~eNs-----~~~i---i~~-a-k~ag~~~----e~--d--i~f 249 (317)
T PRK14848 189 HNEVFLINT-GDHWLLCLFYKLAEKIKCLIFNTYYDLNENT-----KQEI---IEA-A-KIAGISE----NE--D--VNF 249 (317)
T ss_pred cceEEEecC-CCcEEEEEhHHhhhhceEEEeecHhhhhhhH-----HHHH---HHH-H-HhhCccc----CC--c--eEE
Confidence 444599998 99999998643 234555677776655433 2222 111 0 0111111 11 1 222
Q ss_pred eCCCCCCCCCCCCcHHHHHHHHHHHHCC
Q 037741 298 VKSAPQQEPGTGDCGVFVLMVTMYLMFG 325 (353)
Q Consensus 298 ~~~vPqQ~Ngt~DCGVFvl~~ae~l~~~ 325 (353)
...--||.=. ..||.|||.+++.+...
T Consensus 250 Ie~nLQqnVp-ngCGlFv~~aIq~l~~~ 276 (317)
T PRK14848 250 IETNLQNNVP-NGCGLFCYHTIQLLSNA 276 (317)
T ss_pred eehhhhhhCC-CcchHHHHHHHHHHHhc
Confidence 2222333333 78999999999977654
No 11
>PRK15371 effector protein YopJ; Provisional
Probab=91.56 E-value=2.5 Score=40.99 Aligned_cols=140 Identities=13% Similarity=0.246 Sum_probs=72.3
Q ss_pred cCCCCccChHHHHHHHH---HHHHH-hhcCCcccCCceEEEch--hhHhhhhhcccc-cccccccceEEEeecCCCCceE
Q 037741 162 TASMGWLGDEHIHEYLR---LISEK-QQQYPNALLQHVTHTDT--FFWLSLWVTAHN-VKIMTDVDMLLIPVNLDGSHWV 234 (353)
Q Consensus 162 L~~~~WLND~VIn~y~~---lL~~~-~~~~~~~~~~~v~~fns--ff~~~L~~~gy~-v~lf~d~d~I~iPIn~~~~HW~ 234 (353)
+..|.|++...-..=++ .|.+. ..+.|+ -..++|++ -|+..|.+.--+ ++-+. -+|++..++.|-+
T Consensus 39 ~~~G~~~~~~~~~~Di~~lp~lv~~~N~r~P~---LNL~~f~s~~~f~~aik~~~~~g~~~~R----~IVn~g~~~~H~v 111 (287)
T PRK15371 39 IADGSWIHKNYARTDLEVMPALVAQANNKYPE---MNLKLVTSPLDLSIEIKETIENGVESSR----FIVNMGSGGIHFS 111 (287)
T ss_pred HHcCCCCCchhHHhhHHhhHHHHHHHhccCCC---CCeeecCCHHHHHHHHHHHhhcccccce----eEEeCCCCcceEE
Confidence 36889998544333222 33333 233332 25677765 355555531100 11122 2333333345665
Q ss_pred EEEEEcc--CCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCeEEeeeCCCCCCCCCCCCcH
Q 037741 235 LARVDFR--KNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEYPWKVIAVKSAPQQEPGTGDCG 312 (353)
Q Consensus 235 LlVId~~--~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~~w~~~~~~~vPqQ~Ngt~DCG 312 (353)
.+-|-.. +.+|.+++|......... .-.+ ++...|..+... ...|.++ ..-.|+-. +|||
T Consensus 112 avDvr~~~Gk~SIIvlEPa~~~~~~~a----~l~~-----rl~~~le~~~l~-----~~~~avi---e~d~QkS~-~dC~ 173 (287)
T PRK15371 112 VIDYKHIDGKTSLILFEPANFNSMGPA----MLAI-----RTKTALEREQLP-----DCHFSMV---EMDIQRSS-SECG 173 (287)
T ss_pred EEEEeccCCCeEEEEECCccccccchH----HHHH-----HHHHHHHhccCC-----CceEEEE---ecccccCc-ccch
Confidence 4444332 358899999866432210 1111 113333322211 1245554 56789888 9999
Q ss_pred HHHHHHHHHHHCCC
Q 037741 313 VFVLMVTMYLMFGL 326 (353)
Q Consensus 313 VFvl~~ae~l~~~~ 326 (353)
+|.|.+|.+.....
T Consensus 174 mFSL~~AkK~~~e~ 187 (287)
T PRK15371 174 IFSLALAKKLYLER 187 (287)
T ss_pred hhhHHHHHHHhhhh
Confidence 99999998887654
No 12
>PF03421 YopJ: YopJ Serine/Threonine acetyltransferase; InterPro: IPR005083 The infection of mammalian host cells by Yersinia sp. causes a rapid induction of the mitogen-activated protein kinase (MAPK; including the ERK, JNK and p38 pathways) and nuclear factor kappaB (NF-kappaB) signalling pathways that would typically result in cytokine production and initiation of the innate immune response. However, these pathways are rapidly inhibited promoting apoptosis. YopJ has been shown to block phosphorylation of active site residues []. It has also been shown that YopJ acetyltransferase is activated by eukaryotic host cell inositol hexakisphosphate []. Serine and threonine acetylation is yet another complication to the control of signalling pathways and may be a may be a widespread mode of biochemical regulation of endogenous processes in eukaryotic cells. It has been shown that YopJ is a serine/threonine acetyltransferase []. It acetylates the serine and threonine residues in the phosphorylation sites of MAPK kinases and nuclear factor kappaB, preventing their activation by phosphorylation and the inhibition of these signalling pathways []. This entry contains YopJ and related proteins.
Probab=87.67 E-value=2.3 Score=38.40 Aligned_cols=137 Identities=15% Similarity=0.183 Sum_probs=72.3
Q ss_pred cCCCCccChHHHHHHH---HHHH-HHhhcCCcccCCceEEEch--hhHhhhhh--cccccccccccceEEEeecCCCCce
Q 037741 162 TASMGWLGDEHIHEYL---RLIS-EKQQQYPNALLQHVTHTDT--FFWLSLWV--TAHNVKIMTDVDMLLIPVNLDGSHW 233 (353)
Q Consensus 162 L~~~~WLND~VIn~y~---~lL~-~~~~~~~~~~~~~v~~fns--ff~~~L~~--~gy~v~lf~d~d~I~iPIn~~~~HW 233 (353)
+..+.|+|...-..=. -.|. ....+.|+ -+..+|.+ -|+..+.+ .+ . . .-..++++..++.|-
T Consensus 15 ~~~g~~~~~~~~~~D~~~lp~lv~~~N~r~P~---LnL~~~~~~~~~~~~i~~~~~~--~---~-s~R~Iv~~~~~~~H~ 85 (177)
T PF03421_consen 15 IKNGSWPNESYAELDIKMLPALVAAENARYPG---LNLHFFDSPEDFVQAIKEINSG--P---Q-SWRAIVNLGGDGIHH 85 (177)
T ss_pred HHhCCCCCcchhhhhHHHHHHHHHHHhhcCCC---CceEEcCCcHHHHHHHHhhcCC--C---C-ceEEEEeCCCCCCcE
Confidence 3678887655443322 2333 33334443 24555544 34555533 11 1 1 234667765455666
Q ss_pred EEEEEEcc-----CCceeeeccCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCCCeEEeeeCCCCCCCCCC
Q 037741 234 VLARVDFR-----KNKVWIYDSLLTFCDDKRYKLKFKSLKVIFPRWLEYVGFYNIRPELRSEYPWKVIAVKSAPQQEPGT 308 (353)
Q Consensus 234 ~LlVId~~-----~~~I~~yDSL~~~~~~~~~~~~~~~L~~~i~~l~~yL~~e~~~k~l~~~~~w~~~~~~~vPqQ~Ngt 308 (353)
+ ++|.+ +..|.+++|-.-...... +... .+.+. +...+. .. .+.+. +.+...|+..
T Consensus 86 ~--a~Dvr~~~~~k~SlI~~Epa~~~~~~~~-------l~~~----~~~~~-~~~~~~-~~--~~~~~-~ie~diQkS~- 146 (177)
T PF03421_consen 86 V--ALDVRHTPNGKPSLIVFEPASFYGMKPA-------LAGY----TKLAE-EARQKL-LP--NAKFA-VIEMDIQKSP- 146 (177)
T ss_pred E--EEEEeecCCCCceEEEEccccccCCcch-------hhhH----HHHHH-HHHhcc-CC--CcEEE-EEecccccCc-
Confidence 5 45544 458999999865543320 1111 11111 111111 22 33333 3478999999
Q ss_pred CCcHHHHHHHHHHHHCCC
Q 037741 309 GDCGVFVLMVTMYLMFGL 326 (353)
Q Consensus 309 ~DCGVFvl~~ae~l~~~~ 326 (353)
+|||+|.|.+|.......
T Consensus 147 ~dC~IFsLs~AkK~~~~~ 164 (177)
T PF03421_consen 147 SDCGIFSLSLAKKMYKED 164 (177)
T ss_pred CcchhhHHHHHHHHhhcc
Confidence 999999999998887543
No 13
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=44.67 E-value=53 Score=37.46 Aligned_cols=35 Identities=23% Similarity=0.529 Sum_probs=26.1
Q ss_pred EEeecC------CCCceEEEEEEccCCceeeeccCCCCCchh
Q 037741 223 LIPVNL------DGSHWVLARVDFRKNKVWIYDSLLTFCDDK 258 (353)
Q Consensus 223 ~iPIn~------~~~HW~LlVId~~~~~I~~yDSL~~~~~~~ 258 (353)
|+||-. ...||.+++ .-+....+.||+||....+.
T Consensus 49 fmpvltgv~p~~~sghwimli-kg~gn~y~lfdplg~~sg~~ 89 (1439)
T PF12252_consen 49 FMPVLTGVSPRQDSGHWIMLI-KGQGNQYYLFDPLGKTSGEG 89 (1439)
T ss_pred CceeecCcCCCCcCceeEEEE-EcCCCceEEecccccccccc
Confidence 566654 267999876 34667899999999877655
No 14
>KOG4110 consensus NADH:ubiquinone oxidoreductase, NDUFS5/15kDa [Energy production and conversion]
Probab=36.90 E-value=31 Score=28.81 Aligned_cols=59 Identities=20% Similarity=0.325 Sum_probs=39.6
Q ss_pred CeEEeeeCCCCCCCCCCCCcHHHHHHHHHHHH-----CCCC---c---cc-----ChhhH---HHHHHHHHHHHHhCCc
Q 037741 292 PWKVIAVKSAPQQEPGTGDCGVFVLMVTMYLM-----FGLR---F---EF-----NASHV---EYFRKKITVDIFNDDI 351 (353)
Q Consensus 292 ~w~~~~~~~vPqQ~Ngt~DCGVFvl~~ae~l~-----~~~~---~---~f-----tq~dm---~~~R~~m~~eLl~~~l 351 (353)
.|.+.....+|.-.-| .|||.|-.++++|.- +|.. + +| -|..| ..+|+.-.+.+++++.
T Consensus 18 r~p~tds~~~p~~~q~-r~cg~FE~e~~eC~eayG~~~g~keC~ie~~dFqECv~~qKqmrra~aiR~qr~Kl~leGk~ 95 (120)
T KOG4110|consen 18 RWPTTDSTEQPYKHQG-RDCGKFEKEWMECAEAYGLERGEKECAIEYDDFQECVLMQKQMRRAHAIRKQRYKLILEGKY 95 (120)
T ss_pred hccccccccCcccccc-ccccHHHHHHHHHHHHHhhHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 6766655678888888 999999999999973 2221 1 12 24444 3477777777777753
No 15
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=30.89 E-value=14 Score=35.38 Aligned_cols=51 Identities=27% Similarity=0.506 Sum_probs=37.7
Q ss_pred hhhcccCCCCCcccccccccCCCCc---------ceeeecCCCc------------ccccccccceeccCCCc
Q 037741 8 FIDTFSKRPNKDSHIARSYEAPDDY---------GVYTDVGNEN------------LSMPTSLYSFYGDVSGE 59 (353)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~------------~~~~~~~~~~~~~~~~~ 59 (353)
+++-|.-++.+..++.+.|--|.-+ |-..|.| +. --+=+--|+|||+++|+
T Consensus 34 ~v~v~~~~t~rgn~~~~~y~~~~~~~~~~lly~hGNa~Dlg-q~~~~~~~l~~~ln~nv~~~DYSGyG~S~G~ 105 (258)
T KOG1552|consen 34 FVEVFKVKTSRGNEIVCMYVRPPEAAHPTLLYSHGNAADLG-QMVELFKELSIFLNCNVVSYDYSGYGRSSGK 105 (258)
T ss_pred ccceEEeecCCCCEEEEEEEcCccccceEEEEcCCcccchH-HHHHHHHHHhhcccceEEEEecccccccCCC
Confidence 7888899999999999999888776 3345655 21 11223459999999999
No 16
>PF14779 BBS1: Ciliary BBSome complex subunit 1
Probab=26.87 E-value=48 Score=31.82 Aligned_cols=33 Identities=27% Similarity=0.467 Sum_probs=27.0
Q ss_pred CCcccccccccceeccC-----------CCceEEEEeecCCCcc
Q 037741 40 NENLSMPTSLYSFYGDV-----------SGESVQVFTEVPPGVS 72 (353)
Q Consensus 40 ~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~ 72 (353)
+.=..+|+++.+||.|. +|..||+++.|.|--+
T Consensus 59 ~~L~d~P~ai~sFy~d~~ep~~P~iAVA~G~~vyiYkNlkP~yK 102 (257)
T PF14779_consen 59 ITLPDLPSAIVSFYMDEHEPRTPAIAVAAGPSVYIYKNLKPFYK 102 (257)
T ss_pred ccccCCCeEEEEEeccCCCCCCCeEEEEeCCEEEEEecccceee
Confidence 33456899999999998 8889999999988544
No 17
>PF05929 Phage_GPO: Phage capsid scaffolding protein (GPO) serine peptidase; InterPro: IPR009228 This entry is represented by Bacteriophage P2, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacteriophage capsid scaffolding protein (GpO) and some related bacterial sequences. GpO is thought to function in both the assembly of proheads and the cleavage of GpN [].; GO: 0019069 viral capsid assembly
Probab=20.50 E-value=68 Score=31.12 Aligned_cols=60 Identities=25% Similarity=0.460 Sum_probs=45.6
Q ss_pred ccCCCCCccc---ccccccCCCCcceeeecCCCcccccccccceeccCC----------Cc-eEEEEeecCCCcc
Q 037741 12 FSKRPNKDSH---IARSYEAPDDYGVYTDVGNENLSMPTSLYSFYGDVS----------GE-SVQVFTEVPPGVS 72 (353)
Q Consensus 12 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~-~~~~~~~~~~~~~ 72 (353)
.-.|.-...+ +|.+|. |.-||--|..-|..-.+|-|-+..|||+. |. ...+|-++.||-.
T Consensus 13 vDGR~I~r~wi~~mAe~Yd-p~~Y~ArI~~EH~r~~~p~~~f~~~GdV~alkaEe~~d~~~gkl~L~A~i~P~~~ 86 (276)
T PF05929_consen 13 VDGREIERQWIEQMAETYD-PEVYGARIWPEHIRSYWPDSPFGNYGDVLALKAEEIDDGGKGKLALFAQIDPNDE 86 (276)
T ss_pred CCCCCCCHHHHHHHHHhcC-hhhcceeecHHHhcccCCccccccccceEEEEEEEcccCCCCeEEEEEEeCCCHH
Confidence 3344444433 467775 88999999999999999999999999992 22 5688889999854
Done!