Query 009996
Match_columns 520
No_of_seqs 261 out of 1223
Neff 5.3
Searched_HMMs 46136
Date Thu Mar 28 19:48:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009996.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009996hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03189 Protease specific for 100.0 1E-129 3E-134 1026.7 36.8 481 1-520 1-490 (490)
2 KOG0778 Protease, Ulp1 family 100.0 4.4E-69 9.6E-74 571.7 24.0 431 38-519 71-510 (511)
3 COG5160 ULP1 Protease, Ulp1 fa 100.0 7.7E-43 1.7E-47 367.2 13.9 192 314-518 377-568 (578)
4 PF02902 Peptidase_C48: Ulp1 p 100.0 2.3E-33 5E-38 267.9 15.0 185 332-517 1-211 (216)
5 KOG3246 Sentrin-specific cyste 99.9 6.9E-24 1.5E-28 204.3 14.6 183 316-518 15-215 (223)
6 KOG0779 Protease, Ulp1 family 99.5 3.2E-14 7E-19 157.7 5.4 193 318-515 353-585 (595)
7 PF03290 Peptidase_C57: Vaccin 97.4 0.00019 4.2E-09 75.4 5.4 88 398-496 230-348 (423)
8 PRK14848 deubiquitinase SseL; 96.7 0.006 1.3E-07 61.5 8.1 103 401-516 190-294 (317)
9 PRK11836 deubiquitinase; Provi 95.6 0.033 7.3E-07 57.2 7.0 94 396-491 216-325 (403)
10 PF00770 Peptidase_C5: Adenovi 94.8 0.088 1.9E-06 50.6 7.1 81 409-494 33-118 (183)
11 PF03421 YopJ: YopJ Serine/Thr 86.6 2.7 5.9E-05 40.6 7.7 83 402-493 74-163 (177)
12 PRK15371 effector protein YopJ 79.8 6.5 0.00014 40.9 7.6 27 468-494 161-187 (287)
13 KOG4110 NADH:ubiquinone oxidor 30.7 39 0.00084 30.6 2.3 32 459-490 16-47 (120)
14 PF12252 SidE: Dot/Icm substra 28.3 1E+02 0.0022 37.6 5.8 33 403-436 49-88 (1439)
15 TIGR00667 aat leucyl/phenylala 27.5 44 0.00095 32.9 2.3 19 330-348 77-95 (185)
No 1
>PLN03189 Protease specific for SMALL UBIQUITIN-RELATED MODIFIER (SUMO); Provisional
Probab=100.00 E-value=1.2e-129 Score=1026.74 Aligned_cols=481 Identities=63% Similarity=1.042 Sum_probs=443.1
Q ss_pred CCcccccCCCCCccc-ccCCCCCCccccCCCCcccccccCCc-ccCcccccccccccCCCCCCcccccccCCcccccccc
Q 009996 1 MGALTSNRKRGDEYL-NYQIPYQNLHISKRPRFNYTQQNQNQ-TLISSNSTVSRMSRYPEAKPPLKREVHAPCRTLKFGF 78 (520)
Q Consensus 1 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (520)
|||||+|+||+++|+ |+++++|+||+||+|||| |+|++.. ..+||||||||||||||+|+||||||||||||+|||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 78 (490)
T PLN03189 1 MGALTSNHKRSDECFNNPLSNSPDFHISKKPRFS-MAQTPDSGNQHSSNSTASRISRYPEVKSPLRREVHAPCRILKFG- 78 (490)
T ss_pred CCcccccccccccccccccccCCccccccCCCcc-ccccccccCCccccccccchhcCCCccchhhhhhcCchhhhhcc-
Confidence 999999999999999 679999999999999999 4555511 128999999999999999999999999999999999
Q ss_pred cccccccccccccCCCCccc-ccccchhhHHHHhHHHHHhhhhhcccccccCceeeecCccccceeeeccCcchhhhhhh
Q 009996 79 ADKSNQAFGSKKANGYGENQ-NLGIRMGNVLRYHLEKAKKSAFGAFRYFSKDKEVIDADNEQEKVEVISDDSSVEEIDAI 157 (520)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (520)
++|+++++++. ++||+|||||++|||+||++||+|+||++|||||||||||.|++++||||||||||+||
T Consensus 79 ---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 (490)
T PLN03189 79 ---------RDKSTDSSEKKQGLGNVMGNFLSRKYDMAKRSALDALRYYRKDKEVVDVGDELGKVEMISDDSSIEEVEAV 149 (490)
T ss_pred ---------cccccchhhhhcchhhhHHHHhhhhhHHHHHHHHHHHHHHhcCCeeeecccccccceeccCccchhhhhee
Confidence 99999999887 79999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccCcccccCCCCCCCCCCCCCccccccccccchhhcccCCCcccccccccccCcccchhhhhccccccc----ccCh
Q 009996 158 EDGREGRSLVFDPRPRGSDENEKPVVDIGEIDGKSAEERNYHTNLQPSSSSVLTDTNNGDVSKMIDLLSLNG----EMTV 233 (520)
Q Consensus 158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~ 233 (520)
|.+..+ .+++..++.+ +.++|..+ +++|++ +|.++++|++||.|++ ++++
T Consensus 150 ~~~~~~----~~~~~~~~~~------~~~~~~~~-----~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~ 203 (490)
T PLN03189 150 EMDVDE----VEEKAEMGNG------LSSDVKIV-----TKNGNL-----------RVEDTSKMLDSLVLNRPETDVLSV 203 (490)
T ss_pred ecccch----hhhccccCcc------ccccceEe-----ecCCcc-----------cccchhhhhhceeecCcccccccc
Confidence 954422 1222233333 23555555 789999 9999999999999998 7999
Q ss_pred HHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHhhhcCCC-CCCcccccCCCCCCCCCCHHHHHHHHHHHcc-CCCceEe
Q 009996 234 DVYKKLLQSVQKRGSKLKEIEFEIELNEKRWASLKQLWPL-KKPEEEQELPREPFIPLTKEEEAAVERAFSA-NWRAVLV 311 (520)
Q Consensus 234 ~~y~~~~~~~~~r~~~l~~~~~~~~~~e~r~~~~~~~~p~-~~~~~~~~~p~~~~~pLS~e~~~~V~~als~-~~~~vLv 311 (520)
|+|+++++++++|+++|++++++++++|++++.+++.+|. +++.+ ++|+++|+|||+|++++|+++|++ +.+++++
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~pLT~e~~~~V~~al~~~~~~~vlv 281 (490)
T PLN03189 204 EAYRKLLQSAERRNSKLKDLGFEIELNEKRLSSLRQSRPKPKEPVE--EVPREPFIPLTREEETEVKRAFSANNRRKVLV 281 (490)
T ss_pred HHHHHHHHHHHhhcchhhhccceeehhhhHHHHHhhhccCcccccc--ccccccCcCCCHHHHHHHHHHhcCCCccceee
Confidence 9999999999999999999999999999999999998886 55554 899999999999999999999998 5578999
Q ss_pred ecCCCCeeechhhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccccceeeehhhhhhhccCCCCCchhHHHHhhhccc
Q 009996 312 SHTETGIDITGKILQCLRPGAWLNDEVINVYLGLLKEREKREPQKFLKCHFFNTFFYNKLACGNKGYDFRAVKRWTSAKK 391 (520)
Q Consensus 312 s~~~~~i~It~~DL~~L~~g~WLNDeVInfYl~lL~~r~~~~p~~~~r~~~FnSfFy~kL~~~~~~~~y~~VrRWtk~kk 391 (520)
++++++|+||++||.||.|++||||+||||||.+|.++...+|..+++||+||||||++|...+.+++|.+|+|||+.++
T Consensus 282 s~~~~~i~IT~~DL~~L~Pg~WLNDeVINfYm~LL~er~~~~p~~~~k~h~FNTFFytkL~~~~~~ygY~~VrRWTk~kK 361 (490)
T PLN03189 282 THENSNIDITGEILRCLKPGAWLNDEVINLYLELLKEREAREPKKFLKCHFFNTFFYKKLVSGKSGYDYKAVRRWTTQKK 361 (490)
T ss_pred ecCCCceEEEHHHhhccCCCCccCHHHHHHHHHHHHHhhhcCcccccceEEEehHHHHHHhhcCCcCChHHHHHHhhhcc
Confidence 98889999999999999999999999999999999998777777889999999999999998766789999999999888
Q ss_pred cccCcccCCceeeeeecCcceEEEEEeccCCcceecccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCCCCceeeccCCCC
Q 009996 392 LGYGLIECDKIFVPIHKQIHWCLAVIDRKDKKFQYLDSLKGRDKKVLGDLARYFVEEVRDKCGKDIDVSDWEQEFVLDLP 471 (520)
Q Consensus 392 v~~dIfskD~IfIPIN~~sHW~L~VId~~~k~I~~yDSLg~~~~~vl~~L~~yL~~E~k~k~g~~~d~s~W~~~~v~~vP 471 (520)
+++++|++|+||||||.+.||+|+|||++.++|.|||||++.+..+++.|++||..|++++.+.+++.+.|...++.++|
T Consensus 362 igv~Lfs~D~IFIPIh~n~HWsLaVId~k~k~I~yyDSLgg~~~~vL~~L~rYL~~E~kdK~g~d~D~s~W~~~~~~~vP 441 (490)
T PLN03189 362 LGYHLIDCDKIFVPIHQEIHWTLAVINKKDQKFQYLDSLKGRDPKILDALAKYYVDEVKDKSEKDIDVSSWEQEFVEDLP 441 (490)
T ss_pred cccccccCceEEeeeecCCeeEEEEEEcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhhcCCCcchhcceeccCCCCC
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999987778999
Q ss_pred CCCCCCchHHHHHHHHHHHHcCCCCccCCCChHHHHHHHHHHHHhhccC
Q 009996 472 EQANGFDCGMFMLKYVDFYSRGLGLCFDQSHMPYFRVRTAKEILRMRAD 520 (520)
Q Consensus 472 QQ~Ng~DCGVFvL~fae~lsrg~~l~FtQ~dMp~~R~rma~EIl~lr~d 520 (520)
||.||+|||||||+||+|+++|.+++|+|+||++||++|++||+++|+|
T Consensus 442 QQ~NG~DCGVFVL~yAE~~SrG~~LtFSQeDMp~fRrRma~EIl~~r~~ 490 (490)
T PLN03189 442 EQKNGYDCGMFMIKYIDFYSRGLGLCFGQEHMPYFRLRTAKEILRLKAD 490 (490)
T ss_pred CCCCCCCHHHHHHHHHHHHcCCCCCCcChhhhHHHHHHHHHHHHHhhcC
Confidence 9999999999999999999999999999999999999999999999987
No 2
>KOG0778 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.4e-69 Score=571.70 Aligned_cols=431 Identities=37% Similarity=0.594 Sum_probs=350.7
Q ss_pred cCCcccCcccccccccccCCCCCCcccccccCCcc-cccccccccccccccccccCCCCcccccccchhhHHHHhHHHHH
Q 009996 38 NQNQTLISSNSTVSRMSRYPEAKPPLKREVHAPCR-TLKFGFADKSNQAFGSKKANGYGENQNLGIRMGNVLRYHLEKAK 116 (520)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 116 (520)
....-..++.+..+.|.+||++...++|+.|+|-| ++..+ |.+++.+++.. .+++++.+.+..++
T Consensus 71 ~~~~~~s~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~----------r~~s~~~~s~~----~~~~~~~~~~~~~~ 136 (511)
T KOG0778|consen 71 RVSGRSSSSRPRDPPIPDRPEVSSDTRRKDFESYRWLLRNS----------RTKSNSVGSPY----TSPGLLRRQYDSSA 136 (511)
T ss_pred ccccccccccCCCCCCccchhhccccccccccccccccccc----------ccccccccCCc----cCcchhhhhcchhh
Confidence 33355677888899999999999999999999998 66666 66777777744 45559999999999
Q ss_pred hhhhhcccccccCceeeecCccccceeeeccCcchhhhhhhh-ccccCcccccCCCCCCCCCCCCCccccccccccchhh
Q 009996 117 KSAFGAFRYFSKDKEVIDADNEQEKVEVISDDSSVEEIDAIE-DGREGRSLVFDPRPRGSDENEKPVVDIGEIDGKSAEE 195 (520)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (520)
.+|+..-.++.+++.+++.+.+.+.+++++.|.+...++..= .|.++ .+++...+... +. .+..
T Consensus 137 ~~~~~~s~~v~~~~~~~~~~~s~~~~~~~~~d~s~~~~s~~~~~~~~~-----~~~~~~~~s~~-~~---~~~~------ 201 (511)
T KOG0778|consen 137 RNALRVSPFVESGPKTVSRGSSVEWTEMVSDDPSELKVSNTLNEGDES-----QEKSEIKDSEK-ST---DEHA------ 201 (511)
T ss_pred hcccccccccCCCcchhcccccccceeecccCCccccccccccccccc-----ccccccccCcC-CC---cchh------
Confidence 999999999999999999999999999999999976665331 11111 01111111111 00 0000
Q ss_pred cccCCCcccccccccccCcccchhhh-hccccccc-----ccChHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHhhh
Q 009996 196 RNYHTNLQPSSSSVLTDTNNGDVSKM-IDLLSLNG-----EMTVDVYKKLLQSVQKRGSKLKEIEFEIELNEKRWASLKQ 269 (520)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~-----~~~~~~y~~~~~~~~~r~~~l~~~~~~~~~~e~r~~~~~~ 269 (520)
+.+-.. ....+++.+ ..++.++. .....+|+...++++++.+.++++.+++.........+..
T Consensus 202 --------~~~n~~---~~~~~~~~~~~~s~~~~~~~~~~~~~~~a~q~~~~~~ee~~s~~~~~~~e~~~~~~~~i~l~~ 270 (511)
T KOG0778|consen 202 --------RIKNGE---NIKTERAENNFDSLSLRREEESDHRGEKAYQNKEKSLEELVSDLKSLRFEIFQKRGELIPLRS 270 (511)
T ss_pred --------hhhccc---chhhhhhhhhhhhhhhcCccchhhhhHHHHhhhhhhHHHHHHHHHHhhhhhcccccccchhhh
Confidence 000000 012223322 44444444 6788899998889999999999999988777654444443
Q ss_pred cCCCCCCcccccCCCCCCCCCCHHHHHHHHHHHcc-CCCceEeecCCCCeeechhhhcccCCCCccChHHHHHHHHHHHH
Q 009996 270 LWPLKKPEEEQELPREPFIPLTKEEEAAVERAFSA-NWRAVLVSHTETGIDITGKILQCLRPGAWLNDEVINVYLGLLKE 348 (520)
Q Consensus 270 ~~p~~~~~~~~~~p~~~~~pLS~e~~~~V~~als~-~~~~vLvs~~~~~i~It~~DL~~L~~g~WLNDeVInfYl~lL~~ 348 (520)
+....+..+.++.+.+.|+||+++.+++++++++. +..++++++ ++|+||.+||+||.+++||||+||||||+||.+
T Consensus 271 ~~~k~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~i~It~~dl~tl~~~~WLNDevINfYm~ll~e 348 (511)
T KOG0778|consen 271 VQEKLEKPKVEVKKEDSFPPLTEEREAQVQRAFSSRNSTEILVTH--FNIDITGKDLQTLRPGNWLNDEVINFYMELLKE 348 (511)
T ss_pred hhcccccccccccCccccccccHHHHHHHHHHhccCCcccceehh--ccccccHHHHhhccCccchhHHHHHHHHHHHHh
Confidence 33332222234667889999999999999999997 889999986 469999999999999999999999999999999
Q ss_pred HhhcCCcccccceeeehhhhhhhccCCCCCchhHHHHhhhccccccCcccCCceeeeeecCcceEEEEEeccCCcceecc
Q 009996 349 REKREPQKFLKCHFFNTFFYNKLACGNKGYDFRAVKRWTSAKKLGYGLIECDKIFVPIHKQIHWCLAVIDRKDKKFQYLD 428 (520)
Q Consensus 349 r~~~~p~~~~r~~~FnSfFy~kL~~~~~~~~y~~VrRWtk~kkv~~dIfskD~IfIPIN~~sHW~L~VId~~~k~I~~yD 428 (520)
+....++ +++||+||||||++|... ||++|+|||++ ++||++|+||||||.+.||||+|||+++++|.|||
T Consensus 349 rs~~~~~-yp~~h~FnTFFy~kL~~~----gy~~VkRWTk~----v~if~~d~i~vPIH~~vHW~l~vid~r~k~i~y~D 419 (511)
T KOG0778|consen 349 RSKKDSK-YPKVHAFNTFFYTKLVGR----GYAGVKRWTKK----VDIFDKDIIFVPIHLGVHWCLAVIDLREKTIEYYD 419 (511)
T ss_pred hccccCC-CceEEEEechhhhhhhhc----chHHHHhHhhc----cCccccceeEeeeecCceEEEEEEEcccceEEEee
Confidence 9987776 999999999999999977 99999999983 78999999999999999999999999999999999
Q ss_pred cCCCCCHHHHHHHHHHHHHHHHhhcCCCCCCCCceeeccCCCCCCCCCCchHHHHHHHHHHHHcCCCCccCCCChHHHHH
Q 009996 429 SLKGRDKKVLGDLARYFVEEVRDKCGKDIDVSDWEQEFVLDLPEQANGFDCGMFMLKYVDFYSRGLGLCFDQSHMPYFRV 508 (520)
Q Consensus 429 SLg~~~~~vl~~L~~yL~~E~k~k~g~~~d~s~W~~~~v~~vPQQ~Ng~DCGVFvL~fae~lsrg~~l~FtQ~dMp~~R~ 508 (520)
||++....++.+|++||.+|+.+|.+.++|.+.|.+..+.++|||.||+|||||+|+|++|++++.+++|+|.|||+||+
T Consensus 420 S~~~~~nr~~~aL~~Yl~~E~~~k~~~~~d~s~w~~~~~~~iP~Q~Ng~DCG~f~c~~~~~~s~~~p~~ftq~dmp~fR~ 499 (511)
T KOG0778|consen 420 SLGGGPNRICDALAKYLQDESRDKSKKDFDVSGWTIEFVQNIPQQRNGSDCGMFVCKYADYISRDVPLTFTQQDMPYFRK 499 (511)
T ss_pred ccCCCCcchHHHHHHHHHHHHhhhhcCCCCccchhhhhhhccccccCCCccceEEeeechhhccCCCcccChhhhHHHHH
Confidence 99977666669999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcc
Q 009996 509 RTAKEILRMRA 519 (520)
Q Consensus 509 rma~EIl~lr~ 519 (520)
+||+||++.+.
T Consensus 500 ~m~~eI~~~~l 510 (511)
T KOG0778|consen 500 KMAKEILHLKL 510 (511)
T ss_pred HHHHHHHhhhc
Confidence 99999999875
No 3
>COG5160 ULP1 Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.7e-43 Score=367.16 Aligned_cols=192 Identities=32% Similarity=0.588 Sum_probs=175.0
Q ss_pred CCCCeeechhhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccccceeeehhhhhhhccCCCCCchhHHHHhhhccccc
Q 009996 314 TETGIDITGKILQCLRPGAWLNDEVINVYLGLLKEREKREPQKFLKCHFFNTFFYNKLACGNKGYDFRAVKRWTSAKKLG 393 (520)
Q Consensus 314 ~~~~i~It~~DL~~L~~g~WLNDeVInfYl~lL~~r~~~~p~~~~r~~~FnSfFy~kL~~~~~~~~y~~VrRWtk~kkv~ 393 (520)
+.++|+||.+|+.||.+|.||||+||||||+||.... ..+...+++|+||||||++|.+. ||.+|+||++ +
T Consensus 377 ~~~~i~IT~~D~~~L~~~~wLNDtIIdFy~k~ls~~s-k~~s~~~~vh~FnTFFYT~Lsrr----Gy~gVrrW~k----k 447 (578)
T COG5160 377 DRSSIEITNQDFKRLRNGDWLNDTIIDFYMKLLSKIS-KNTSKREQVHLFNTFFYTKLSRR----GYSGVRRWTK----K 447 (578)
T ss_pred CcCcceeehHhhhhhccccchhhHHHHHHHHHHHHhc-cCcccccceEEeehhhHHHHHHH----HhHHHHHHHh----c
Confidence 5689999999999999999999999999999995544 34446688999999999999988 9999999998 4
Q ss_pred cCcccCCceeeeeecCcceEEEEEeccCCcceecccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCCCCceeeccCCCCCC
Q 009996 394 YGLIECDKIFVPIHKQIHWCLAVIDRKDKKFQYLDSLKGRDKKVLGDLARYFVEEVRDKCGKDIDVSDWEQEFVLDLPEQ 473 (520)
Q Consensus 394 ~dIfskD~IfIPIN~~sHW~L~VId~~~k~I~~yDSLg~~~~~vl~~L~~yL~~E~k~k~g~~~d~s~W~~~~v~~vPQQ 473 (520)
++||++++||||||...||+|+|||.+.+.|.|||||++.+..+++.|+.|+.+|++...+ .+.|......+||||
T Consensus 448 ~dif~~k~I~iPIni~~HW~l~II~~~~~~i~~~DSLan~~~~v~~~L~~Y~ldE~k~~~~----k~~~~~~~~~~vPqQ 523 (578)
T COG5160 448 TDIFSKKYIFIPINISYHWFLAIIDNPKKNILYFDSLANTHDPVLEFLRSYLLDEYKIQHD----KDPQIKMKHCKVPQQ 523 (578)
T ss_pred cCccccceEEEEecccceEEEEEeecCcceeEEecccccCcHHHHHHHHHHHHHHHhcccC----CchhhhhhcCCCCCC
Confidence 6899999999999999999999999999999999999999999999999999999876544 444655556899999
Q ss_pred CCCCchHHHHHHHHHHHHcCCCCccCCCChHHHHHHHHHHHHhhc
Q 009996 474 ANGFDCGMFMLKYVDFYSRGLGLCFDQSHMPYFRVRTAKEILRMR 518 (520)
Q Consensus 474 ~Ng~DCGVFvL~fae~lsrg~~l~FtQ~dMp~~R~rma~EIl~lr 518 (520)
.||+|||||||+|++|++.+.+..|++.+|+.+|++|+.+|+..+
T Consensus 524 ~Ng~DCGV~vc~~~~~~~~~~p~~f~~nd~~r~Rk~m~h~i~~~q 568 (578)
T COG5160 524 RNGSDCGVFVCMFIRYFLENPPEQFSKNDRPRARKNMAHTIKDLQ 568 (578)
T ss_pred CCCCccceEEEEeeeecccCChhhcCccchHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999998764
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=100.00 E-value=2.3e-33 Score=267.89 Aligned_cols=185 Identities=31% Similarity=0.611 Sum_probs=146.8
Q ss_pred CccChHHHHHHHHHHHHHhhcCCcccccceeeehhhhhhhccC-----CC-----------CCchhHHHHhhhccccccC
Q 009996 332 AWLNDEVINVYLGLLKEREKREPQKFLKCHFFNTFFYNKLACG-----NK-----------GYDFRAVKRWTSAKKLGYG 395 (520)
Q Consensus 332 ~WLNDeVInfYl~lL~~r~~~~p~~~~r~~~FnSfFy~kL~~~-----~~-----------~~~y~~VrRWtk~kkv~~d 395 (520)
+||||.|||||+.+|.++....+....++++|+|+|++.|... .. ...+..+.+|++.. ...+
T Consensus 1 ~wLnd~iId~y~~~l~~~~~~~~~~~~~~~~~~~~f~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 79 (216)
T PF02902_consen 1 EWLNDSIIDFYLEYLRHRLESENKNSKRVHFFSSFFYQKLTECFKQFKKDKERSKFKWNESKDFYNGVQRWFRKK-NKKN 79 (216)
T ss_dssp --EEHHHHHHHHHHHHHHTCCTHHTSTTEEEE-THHHHHHH----HHHCCH--S-----HHHHCHHHCGGGGTTC-CTST
T ss_pred CcCCHHHHHHHHHHHHHhhccCccCCCcEEEECceeeeccccccccccccccccccchhhhhHhhhhhhhhhhcc-cccc
Confidence 6999999999999998664333335578999999999999821 00 12467888998743 2347
Q ss_pred cccCCceeeeeec-CcceEEEEEeccCCcceecccCCCCCH-----HHHHHHHHHHHHHHHhhcCCCCCCCCceeeccCC
Q 009996 396 LIECDKIFVPIHK-QIHWCLAVIDRKDKKFQYLDSLKGRDK-----KVLGDLARYFVEEVRDKCGKDIDVSDWEQEFVLD 469 (520)
Q Consensus 396 IfskD~IfIPIN~-~sHW~L~VId~~~k~I~~yDSLg~~~~-----~vl~~L~~yL~~E~k~k~g~~~d~s~W~~~~v~~ 469 (520)
++++++||+|||. ++||+|+||+++.++|++||||++... ..+..+..+|...+....+...+...|......+
T Consensus 80 l~~~~~i~iPin~~~~HW~l~vi~~~~~~i~~~DSl~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 159 (216)
T PF02902_consen 80 LFDKDYIFIPININNNHWVLLVIDLPKKRIYVYDSLGSSNNDKRYKRVIENIIPFLKREYKKKEGRDPDKSPFKIVRPPN 159 (216)
T ss_dssp GGGSSEEEEEEEETTTEEEEEEEETTTTEEEEE-TTSTSSH-HHHHHHHHHHHHHHHHHHHHHHSSCT-TTTCEEEEECT
T ss_pred ccccCEEEEEEechhhccceeEEcccccEEEEEeccccccccccchhhhhhhhhhhhhccccccccccccceeeeccccc
Confidence 8999999999999 999999999999999999999999887 5678888888888777666666778898887789
Q ss_pred CCCCCCCCchHHHHHHHHHHHHcCCCCc----cCCCChHHHHHHHHHHHHhh
Q 009996 470 LPEQANGFDCGMFMLKYVDFYSRGLGLC----FDQSHMPYFRVRTAKEILRM 517 (520)
Q Consensus 470 vPQQ~Ng~DCGVFvL~fae~lsrg~~l~----FtQ~dMp~~R~rma~EIl~l 517 (520)
+|||.|++|||+|||+||++++.+.+.. |++++|..+|.+++.+|.+.
T Consensus 160 ~pqQ~n~~dCGv~vl~~~~~~~~~~~~~~~~~l~~~~i~~~r~~~a~~~~e~ 211 (216)
T PF02902_consen 160 VPQQPNGYDCGVYVLKFMECLLEGPSFDFSQELTEEDIKNFRKKLAVDLYEE 211 (216)
T ss_dssp S-SSSSSSCHHHHHHHHHHHHHCTHHSTGCCSBTGHHHHHHHHHHHH-----
T ss_pred ccCCCCCCCcHHHHHHHHHHHHhCCCCcccccCCHHHHHHHHHHHHhhcccc
Confidence 9999999999999999999999998765 79999999999999887654
No 5
>KOG3246 consensus Sentrin-specific cysteine protease (Ulp1 family) [General function prediction only]
Probab=99.91 E-value=6.9e-24 Score=204.26 Aligned_cols=183 Identities=23% Similarity=0.338 Sum_probs=127.1
Q ss_pred CCeeechhhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccccceeeehhhhhhhccCCCCCchhHHHHhhhccccccC
Q 009996 316 TGIDITGKILQCLRPGAWLNDEVINVYLGLLKEREKREPQKFLKCHFFNTFFYNKLACGNKGYDFRAVKRWTSAKKLGYG 395 (520)
Q Consensus 316 ~~i~It~~DL~~L~~g~WLNDeVInfYl~lL~~r~~~~p~~~~r~~~FnSfFy~kL~~~~~~~~y~~VrRWtk~kkv~~d 395 (520)
+.+.++..|++.|.++.||||.+|+||.+||.+..... .+..+++++-.-..|.... .-+.+...... .+
T Consensus 15 ~dv~Lr~sDVdlL~~p~wlnD~~I~F~~e~l~~~~~~s---~~~~~ll~P~~t~~l~~~~---~~~e~~~~~~p----l~ 84 (223)
T KOG3246|consen 15 FDVSLRQSDVDLLQPPEWLNDRLIDFYYEYLEHRRSRS---EPDLHLLRPSLTFFLRHAP---NPEEIAMVLDP----LD 84 (223)
T ss_pred eehhhhhhhhhhcCCCchhhhhHHHHHHHHHHHhhccc---CcchhccCHHHHHHHHhCC---CcHHHHHhcCh----hh
Confidence 46789999999999999999999999999998875322 1235676643222222221 22334444432 26
Q ss_pred cccCCceeeeeec---------CcceEEEEEeccCCcceecccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCCCCceeec
Q 009996 396 LIECDKIFVPIHK---------QIHWCLAVIDRKDKKFQYLDSLKGRDKKVLGDLARYFVEEVRDKCGKDIDVSDWEQEF 466 (520)
Q Consensus 396 IfskD~IfIPIN~---------~sHW~L~VId~~~k~I~~yDSLg~~~~~vl~~L~~yL~~E~k~k~g~~~d~s~W~~~~ 466 (520)
+.++++||+|||. |+||+|+|++.++++++||||+.+.|....+.+.+-+...++.+.. .+
T Consensus 85 l~~k~~iflpiNDn~~~~~~~GGsHWSLLV~sr~~~~f~hyDS~~n~nt~~a~~l~~kl~~ll~~~~~----------~~ 154 (223)
T KOG3246|consen 85 LNDKDFIFLPINDNSNVTRASGGSHWSLLVFSRPDGKFYHYDSLSNGNTKDAKSLMKKLRALLKKKFA----------KR 154 (223)
T ss_pred cCCCceEEEEecCCCcccccCCCcceEEEEEEeeCCcEEEeecccCCCcHHHHHHHHHHHHHHhhhhh----------hc
Confidence 8899999999994 4699999999999999999999999977665555555554443311 11
Q ss_pred -cCCCCCCCCCCchHHHHHHHHHHHHcCC----CCccCC----CChHHHHHHHHHHHHhhc
Q 009996 467 -VLDLPEQANGFDCGMFMLKYVDFYSRGL----GLCFDQ----SHMPYFRVRTAKEILRMR 518 (520)
Q Consensus 467 -v~~vPQQ~Ng~DCGVFvL~fae~lsrg~----~l~FtQ----~dMp~~R~rma~EIl~lr 518 (520)
...+|||.||||||+|||.+.+.++... -.+-.| +.+..+|..+...|..++
T Consensus 155 ~~~~~~qQqNgyDCG~hV~~~t~~l~~~~~~~~~~~~~~~~~~~~i~~lr~~l~~LI~slg 215 (223)
T KOG3246|consen 155 VECKCLQQQNGYDCGLHVCCNTRVLAERLLRCPYATSSQLLVVDLIKALREELLDLIQSLG 215 (223)
T ss_pred ccccChhhhcCCchhHHHHHHHHHHHHHHhccccccccchhhHHHHHHHHHHHHHHHHHhC
Confidence 3579999999999999999988776542 123233 344555655555555544
No 6
>KOG0779 consensus Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=3.2e-14 Score=157.74 Aligned_cols=193 Identities=24% Similarity=0.393 Sum_probs=136.3
Q ss_pred eeechhhhcccCCCCccChHHHHHHHHHHHHHhhcCCcccccceeeehhhhhhhccCC--------CCCchhHHHHhhhc
Q 009996 318 IDITGKILQCLRPGAWLNDEVINVYLGLLKEREKREPQKFLKCHFFNTFFYNKLACGN--------KGYDFRAVKRWTSA 389 (520)
Q Consensus 318 i~It~~DL~~L~~g~WLNDeVInfYl~lL~~r~~~~p~~~~r~~~FnSfFy~kL~~~~--------~~~~y~~VrRWtk~ 389 (520)
+.++..||.||..+..|||.+++||+.++........+....+|+|++|||..+.... .......+++|++
T Consensus 353 ~~v~~~Dl~cl~~~e~L~d~i~dfyl~~i~~~~l~~~~~s~~~h~f~tffyk~l~~~~~~~~~d~~~~~~~~~~~~~~~- 431 (595)
T KOG0779|consen 353 HQVNNNDLVCLEEGEFLNDTIKDFYLEYIRQYLLSQKELSNDRHIFSTFFYKRLCRKLRQKSNDQIQDNRAVRLRTWTR- 431 (595)
T ss_pred cceeccchhhccccchhhhhhhhhhhHHHHHhhhcccccCcchhhhhhHHHhhhhhhhhhhhhhhhhccccCceeeeee-
Confidence 4688899999999999999999999999988765434456789999999999988761 1224567888987
Q ss_pred cccccCcccCCceeeeeecCcceEEEEEeccCC------cceecccCCCCCH-HHHHHHHHHHHHHHHhhcCC------C
Q 009996 390 KKLGYGLIECDKIFVPIHKQIHWCLAVIDRKDK------KFQYLDSLKGRDK-KVLGDLARYFVEEVRDKCGK------D 456 (520)
Q Consensus 390 kkv~~dIfskD~IfIPIN~~sHW~L~VId~~~k------~I~~yDSLg~~~~-~vl~~L~~yL~~E~k~k~g~------~ 456 (520)
++++|.+++|++|+|...||.|++|+.... ....++++..... .....+..++..++...... +
T Consensus 432 ---~~d~~~k~yi~~P~~E~~hw~laiic~p~~e~es~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 508 (595)
T KOG0779|consen 432 ---HFDLFNKDYVFVPTHERFHWKLAIICNPDLETETPRPRLELLILKLSADFPIVENILDFMKVASIYNNELIVTEDLE 508 (595)
T ss_pred ---ccccccceeEEecCchHhhhhccccccCccccCccccchhhhhhccccccchhhhhhhhhhhcccccCccccccccc
Confidence 579999999999999999999999998754 3455555544322 23333444444433322111 1
Q ss_pred CCCCCcee------eccCCCCCCCCCCchHHHHHHHHHHHHcCCCC-------------ccCCCChHHHHHHHHHHHH
Q 009996 457 IDVSDWEQ------EFVLDLPEQANGFDCGMFMLKYVDFYSRGLGL-------------CFDQSHMPYFRVRTAKEIL 515 (520)
Q Consensus 457 ~d~s~W~~------~~v~~vPQQ~Ng~DCGVFvL~fae~lsrg~~l-------------~FtQ~dMp~~R~rma~EIl 515 (520)
++..-|.. ..+. .|||.|..|||+|++.|++.+..+.+. .|.+..+..+|..+-..+.
T Consensus 509 ~~~~~~~~~~~~~s~~v~-~p~q~n~~dcG~~~~~~v~~f~e~~~e~~~~~~~~~~~l~~~~~~~~~~~r~~~r~~~~ 585 (595)
T KOG0779|consen 509 LEEELPRRLPRGKSETVR-EPQQNNDVDCGSFVLEFVERFIEDAPERFNIEDEGTINLEWFPPKEILKFRDEIRNLGR 585 (595)
T ss_pred ccccccccCccccccccc-ccCccCcccchhhHHHHHHHhhhChhhhcccccccccccccCCchHHhhhhhhhhcccc
Confidence 11111111 0112 389999999999999999998776532 2778888888877655444
No 7
>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=97.40 E-value=0.00019 Score=75.42 Aligned_cols=88 Identities=19% Similarity=0.267 Sum_probs=65.9
Q ss_pred cCCceeeeeecCcceEEEEEeccCCcceecccCCCCCHH-------------------------------HHHHHHHHHH
Q 009996 398 ECDKIFVPIHKQIHWCLAVIDRKDKKFQYLDSLKGRDKK-------------------------------VLGDLARYFV 446 (520)
Q Consensus 398 skD~IfIPIN~~sHW~L~VId~~~k~I~~yDSLg~~~~~-------------------------------vl~~L~~yL~ 446 (520)
.+.++.+|++..+||.++|+|..++-+.+|||-|..... -+..|.+|+.
T Consensus 230 ~~RyvmFgfcY~~Hwkc~IfDk~~~~v~FydSgG~~P~efhhy~nfyFysfs~gfn~n~~~~s~l~n~n~dIDVLfrfF~ 309 (423)
T PF03290_consen 230 KKRYVMFGFCYMSHWKCCIFDKEKKIVYFYDSGGNIPEEFHHYKNFYFYSFSDGFNRNNKSTSNLDNENCDIDVLFRFFE 309 (423)
T ss_pred cccEEEeeeeehhcceEEEEeccccEEEEEcCCCCCHHHcCcCCceEEEEccCccccCCCcccccccccCchHHHHHHHH
Confidence 677999999999999999999999999999998754211 2356777777
Q ss_pred HHHHhhcCCCCCCCCceeeccCCCCCCCCCCchHHHHHHHHHHHHcCCCC
Q 009996 447 EEVRDKCGKDIDVSDWEQEFVLDLPEQANGFDCGMFMLKYVDFYSRGLGL 496 (520)
Q Consensus 447 ~E~k~k~g~~~d~s~W~~~~v~~vPQQ~Ng~DCGVFvL~fae~lsrg~~l 496 (520)
+....+.|- ++ ----|-...+||+|++.||-......|-
T Consensus 310 d~f~~~~gc-iN----------vevnQl~eseCGMF~~iFm~~c~~~ppk 348 (423)
T PF03290_consen 310 DSFGVKYGC-IN----------VEVNQLLESECGMFISIFMILCTLTPPK 348 (423)
T ss_pred hhcccceeE-EE----------hhhhhhcccccchHHHHHHHHHHccCch
Confidence 665444331 11 1124788899999999999988776654
No 8
>PRK14848 deubiquitinase SseL; Provisional
Probab=96.69 E-value=0.006 Score=61.46 Aligned_cols=103 Identities=14% Similarity=0.199 Sum_probs=58.0
Q ss_pred ceeeeeecCcceEEEEEecc--CCcceecccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCCCCceeeccCCCCCCCCCCc
Q 009996 401 KIFVPIHKQIHWCLAVIDRK--DKKFQYLDSLKGRDKKVLGDLARYFVEEVRDKCGKDIDVSDWEQEFVLDLPEQANGFD 478 (520)
Q Consensus 401 ~IfIPIN~~sHW~L~VId~~--~k~I~~yDSLg~~~~~vl~~L~~yL~~E~k~k~g~~~d~s~W~~~~v~~vPQQ~Ng~D 478 (520)
.=+||||.++||.|+++..- +-+..+|.|+..-+....+.+.. . ..+.|. . .+-.+.++.-=-||.=...
T Consensus 190 nevF~INtg~HWil~~~~Ki~~kiKC~iFNs~~~l~eNs~~~ii~---~--ak~ag~-~--~e~di~fIe~nLQqnVpng 261 (317)
T PRK14848 190 NEVFLINTGDHWLLCLFYKLAEKIKCLIFNTYYDLNENTKQEIIE---A--AKIAGI-S--ENEDVNFIETNLQNNVPNG 261 (317)
T ss_pred ceEEEecCCCcEEEEEhHHhhhhceEEEeecHhhhhhhHHHHHHH---H--HHhhCc-c--cCCceEEeehhhhhhCCCc
Confidence 34699999999999876432 23456788887665444443332 1 112221 1 1112233322234444568
Q ss_pred hHHHHHHHHHHHHcCCCCccCCCChHHHHHHHHHHHHh
Q 009996 479 CGMFMLKYVDFYSRGLGLCFDQSHMPYFRVRTAKEILR 516 (520)
Q Consensus 479 CGVFvL~fae~lsrg~~l~FtQ~dMp~~R~rma~EIl~ 516 (520)
||.|+|.+++.+... +|.+....=+..+...++
T Consensus 262 CGlFv~~aIq~l~~~-----~q~dPyt~Lkeyae~Flk 294 (317)
T PRK14848 262 CGLFCYHTIQLLSNA-----GQNDPATTLREFAENFLT 294 (317)
T ss_pred chHHHHHHHHHHHhc-----ccCCHHHHHHHHHHHHHh
Confidence 999999999988755 355544444444444443
No 9
>PRK11836 deubiquitinase; Provisional
Probab=95.55 E-value=0.033 Score=57.25 Aligned_cols=94 Identities=18% Similarity=0.239 Sum_probs=52.1
Q ss_pred cccCCceeeeeecCcceEEEEEec--------cCCcceecccCCCCCH---HHHHHHHHHHHHHH----H-hhcCCCCCC
Q 009996 396 LIECDKIFVPIHKQIHWCLAVIDR--------KDKKFQYLDSLKGRDK---KVLGDLARYFVEEV----R-DKCGKDIDV 459 (520)
Q Consensus 396 IfskD~IfIPIN~~sHW~L~VId~--------~~k~I~~yDSLg~~~~---~vl~~L~~yL~~E~----k-~k~g~~~d~ 459 (520)
+|-++.-+||||.++||.|+++.. .+.+..+|.|+..-+. ...+.+..-+..|+ . .+... ..
T Consensus 216 ~~~k~~elFpINtg~HWil~~l~Ki~~~~~~~ekiKC~IFNs~~~l~~d~~~t~q~ii~a~~~~~~~~~~~~~ik~--~~ 293 (403)
T PRK11836 216 SWPKEVQLFPINTGGHWILVSLQKIVNEKNNTQQIKCVIFNSLRALGHDKENSLKRVINSFNSELMGEMSNNNIKV--HL 293 (403)
T ss_pred CCcccceEEEecCCCcEEEEEeHHhhhcccccceeEEEEEecHhhhccchhhHHHHHHHhhhhhhhhhcchhhhcc--cc
Confidence 456677899999999999997742 2334567777765432 23333332221121 1 12111 12
Q ss_pred CCceeeccCCCCCCCCCCchHHHHHHHHHHHH
Q 009996 460 SDWEQEFVLDLPEQANGFDCGMFMLKYVDFYS 491 (520)
Q Consensus 460 s~W~~~~v~~vPQQ~Ng~DCGVFvL~fae~ls 491 (520)
.+-.+.++.---||.=...||.|+|+.+.-+.
T Consensus 294 ~e~ei~fie~dLQq~vpngCGlFv~~a~Qe~i 325 (403)
T PRK11836 294 TEPEIIFLHADLQQYLSQSCGAFVCMAAQEVI 325 (403)
T ss_pred cCCceEEEechhhhcCCCccceehHHHHHHHH
Confidence 22233333333345445789999998888443
No 10
>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=94.84 E-value=0.088 Score=50.57 Aligned_cols=81 Identities=12% Similarity=0.191 Sum_probs=41.7
Q ss_pred CcceEEEEEeccCCcceecccCCCCCHHHHHHHH----HHHHHHHHh-hcCCCCCCCCceeeccCCCCCCCCCCchHHHH
Q 009996 409 QIHWCLAVIDRKDKKFQYLDSLKGRDKKVLGDLA----RYFVEEVRD-KCGKDIDVSDWEQEFVLDLPEQANGFDCGMFM 483 (520)
Q Consensus 409 ~sHW~L~VId~~~k~I~~yDSLg~~~~~vl~~L~----~yL~~E~k~-k~g~~~d~s~W~~~~v~~vPQQ~Ng~DCGVFv 483 (520)
|.||.-...|+..++++.||.+|-++.+..+.-. ..|..-.-. ....-+ +.+...+.-|=+++--||+|.
T Consensus 33 GvHWlA~Aw~P~s~t~YmFDPfGfsd~~L~qiY~FeYe~llrRSAL~~~~dRCv-----~LvkstqtVQ~p~SaaCGLFC 107 (183)
T PF00770_consen 33 GVHWLAFAWDPRSRTFYMFDPFGFSDQKLKQIYQFEYEGLLRRSALSSTPDRCV-----TLVKSTQTVQCPCSAACGLFC 107 (183)
T ss_dssp -S-EEEEEEETTTTEEEEE-TT---HHHHHHHH----HHHHHHHHHHH-TTSEE-----EEEEE-EE-S-TT---HHHHH
T ss_pred ceeEEEEEecCCcceEEEeCCCCCCHHHHHHHHhhhHHHHHHHHhhcCCCCceE-----EEEeccceeeccCchhHHHHH
Confidence 7899999999999999999999988765332111 111111111 111101 122223455667889999999
Q ss_pred HHHHHHHHcCC
Q 009996 484 LKYVDFYSRGL 494 (520)
Q Consensus 484 L~fae~lsrg~ 494 (520)
|.|+.++....
T Consensus 108 ~lFL~aF~~~p 118 (183)
T PF00770_consen 108 CLFLHAFVHYP 118 (183)
T ss_dssp HHHHHHHHH-T
T ss_pred HHHHHHHHhCC
Confidence 99999987643
No 11
>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=86.58 E-value=2.7 Score=40.65 Aligned_cols=83 Identities=19% Similarity=0.249 Sum_probs=48.3
Q ss_pred eeeeeec-CcceEEEEEecc-----CCcceecccCCCCCHHH-HHHHHHHHHHHHHhhcCCCCCCCCceeeccCCCCCCC
Q 009996 402 IFVPIHK-QIHWCLAVIDRK-----DKKFQYLDSLKGRDKKV-LGDLARYFVEEVRDKCGKDIDVSDWEQEFVLDLPEQA 474 (520)
Q Consensus 402 IfIPIN~-~sHW~L~VId~~-----~k~I~~yDSLg~~~~~v-l~~L~~yL~~E~k~k~g~~~d~s~W~~~~v~~vPQQ~ 474 (520)
.++|+.. +.|.+ ++|.+ +..+.+++|-...+... +....+.+. +...+.+. .+.+. +.++..|+
T Consensus 74 ~Iv~~~~~~~H~~--a~Dvr~~~~~k~SlI~~Epa~~~~~~~~l~~~~~~~~-~~~~~~~~-----~~~~~-~ie~diQk 144 (177)
T PF03421_consen 74 AIVNLGGDGIHHV--ALDVRHTPNGKPSLIVFEPASFYGMKPALAGYTKLAE-EARQKLLP-----NAKFA-VIEMDIQK 144 (177)
T ss_pred EEEeCCCCCCcEE--EEEEeecCCCCceEEEEccccccCCcchhhhHHHHHH-HHHhccCC-----CcEEE-EEeccccc
Confidence 4556443 56654 45544 34689999886443211 221122222 22222222 33332 45788999
Q ss_pred CCCchHHHHHHHHHHHHcC
Q 009996 475 NGFDCGMFMLKYVDFYSRG 493 (520)
Q Consensus 475 Ng~DCGVFvL~fae~lsrg 493 (520)
..+|||+|.|.+|..+...
T Consensus 145 S~~dC~IFsLs~AkK~~~~ 163 (177)
T PF03421_consen 145 SPSDCGIFSLSLAKKMYKE 163 (177)
T ss_pred CcCcchhhHHHHHHHHhhc
Confidence 9999999999999988754
No 12
>PRK15371 effector protein YopJ; Provisional
Probab=79.78 E-value=6.5 Score=40.95 Aligned_cols=27 Identities=19% Similarity=0.337 Sum_probs=22.5
Q ss_pred CCCCCCCCCCchHHHHHHHHHHHHcCC
Q 009996 468 LDLPEQANGFDCGMFMLKYVDFYSRGL 494 (520)
Q Consensus 468 ~~vPQQ~Ng~DCGVFvL~fae~lsrg~ 494 (520)
...-.|+-.+|||+|.|.+|.+.....
T Consensus 161 ie~d~QkS~~dC~mFSL~~AkK~~~e~ 187 (287)
T PRK15371 161 VEMDIQRSSSECGIFSLALAKKLYLER 187 (287)
T ss_pred EecccccCcccchhhhHHHHHHHhhhh
Confidence 346679999999999999999887654
No 13
>KOG4110 consensus NADH:ubiquinone oxidoreductase, NDUFS5/15kDa [Energy production and conversion]
Probab=30.66 E-value=39 Score=30.56 Aligned_cols=32 Identities=22% Similarity=0.540 Sum_probs=26.2
Q ss_pred CCCceeeccCCCCCCCCCCchHHHHHHHHHHH
Q 009996 459 VSDWEQEFVLDLPEQANGFDCGMFMLKYVDFY 490 (520)
Q Consensus 459 ~s~W~~~~v~~vPQQ~Ng~DCGVFvL~fae~l 490 (520)
+..|.......+|.-.-|+|||.|-..+++|.
T Consensus 16 ~~r~p~tds~~~p~~~q~r~cg~FE~e~~eC~ 47 (120)
T KOG4110|consen 16 IDRWPTTDSTEQPYKHQGRDCGKFEKEWMECA 47 (120)
T ss_pred hhhccccccccCccccccccccHHHHHHHHHH
Confidence 44566655677888888999999999999997
No 14
>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=28.34 E-value=1e+02 Score=37.64 Aligned_cols=33 Identities=18% Similarity=0.541 Sum_probs=25.2
Q ss_pred eeeee-------cCcceEEEEEeccCCcceecccCCCCCHH
Q 009996 403 FVPIH-------KQIHWCLAVIDRKDKKFQYLDSLKGRDKK 436 (520)
Q Consensus 403 fIPIN-------~~sHW~L~VId~~~k~I~~yDSLg~~~~~ 436 (520)
|+||- ..+||.+++ --+.+..++||.||.....
T Consensus 49 fmpvltgv~p~~~sghwimli-kg~gn~y~lfdplg~~sg~ 88 (1439)
T PF12252_consen 49 FMPVLTGVSPRQDSGHWIMLI-KGQGNQYYLFDPLGKTSGE 88 (1439)
T ss_pred CceeecCcCCCCcCceeEEEE-EcCCCceEEeccccccccc
Confidence 77775 368998875 4556789999999977654
No 15
>TIGR00667 aat leucyl/phenylalanyl-tRNA--protein transferase. The N-terminal residue controls the biological half-life of many proteins via the N-end rule pathway. This enzyme transfers a Leu or Phe to the amino end of certain proteins to enable degradation.
Probab=27.55 E-value=44 Score=32.86 Aligned_cols=19 Identities=32% Similarity=0.775 Sum_probs=16.8
Q ss_pred CCCccChHHHHHHHHHHHH
Q 009996 330 PGAWLNDEVINVYLGLLKE 348 (520)
Q Consensus 330 ~g~WLNDeVInfYl~lL~~ 348 (520)
++.|+++++|++|.++-..
T Consensus 77 ~gTWI~~e~~~aY~~LH~~ 95 (185)
T TIGR00667 77 EGTWISDELVEAYHRLHEL 95 (185)
T ss_pred CCCCCCHHHHHHHHHHHHh
Confidence 6899999999999997754
Done!