Query 016269
Match_columns 392
No_of_seqs 175 out of 352
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 05:20:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2674 Cysteine protease requ 100.0 1.4E-97 3E-102 743.9 23.8 306 68-392 3-317 (409)
2 PF03416 Peptidase_C54: Peptid 100.0 3.3E-89 7.1E-94 663.5 18.1 240 136-392 2-244 (278)
3 PF07910 Peptidase_C78: Peptid 98.0 4.8E-06 1.1E-10 79.4 4.8 47 327-374 123-185 (218)
4 KOG2433 Uncharacterized conser 97.4 0.00041 8.9E-09 71.6 7.3 69 164-255 402-473 (577)
5 KOG2674 Cysteine protease requ 94.6 0.0029 6.4E-08 65.4 -3.7 134 56-257 74-207 (409)
6 KOG4696 Uncharacterized conser 88.7 0.22 4.8E-06 50.3 1.6 38 150-187 173-214 (393)
7 KOG4696 Uncharacterized conser 79.6 0.96 2.1E-05 45.8 1.5 21 166-186 125-145 (393)
8 PF13529 Peptidase_C39_2: Pept 50.1 21 0.00045 29.5 3.6 30 340-369 114-144 (144)
9 PF15644 Tox-PL: Papain fold t 46.2 18 0.00038 30.8 2.6 24 346-370 84-107 (111)
10 cd02549 Peptidase_C39A A sub-f 41.0 44 0.00096 28.1 4.3 27 345-371 89-116 (141)
11 PF04843 Herpes_teg_N: Herpesv 21.3 1.9E+02 0.0041 26.9 5.1 43 327-373 105-153 (172)
No 1
>KOG2674 consensus Cysteine protease required for autophagy - Apg4p/Aut2p [Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-97 Score=743.90 Aligned_cols=306 Identities=42% Similarity=0.788 Sum_probs=276.5
Q ss_pred cccccccCCChhHHHHHH-hhcchHHHHHHHhhCCCCCCCCCCCCcEEEcCeeecCCCcccccccCCCcchHHHHhhccc
Q 016269 68 KKAVHNKSNGWTAAVKRL-VTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNNGLAEFNQDFSS 146 (392)
Q Consensus 68 ~~~~~~~~~~w~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~~~~~f~~Df~S 146 (392)
++.+++..+.|+.+++++ +.++..++++++++++..++++..+++||+||++|.+..++. ++|+.||.|
T Consensus 3 ~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~lg~~y~is~~~~----------e~f~~D~~S 72 (409)
T KOG2674|consen 3 HSIVCTTRQSWTLFVKTLGEASSHIRFLGKTVLFAELENIESGGEDVWILGRRYKISTEES----------EEFLSDVSS 72 (409)
T ss_pred ccchhhhhhhHHHHHHHHHhhhhhhhhhhheecccccccCCCCCcceEEEeeeeeeccCHH----------HHHHHhhhh
Confidence 566788899999999988 455567777888899999999999999999999999987641 899999999
Q ss_pred eEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCCCCCCCchhhHH
Q 016269 147 RILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGDSETSPFSIHNL 226 (392)
Q Consensus 147 riWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D~~~aPFSIH~i 226 (392)
|||||||++|+||+++++|||+|||||||||||||||||+++||||+|+|++.+..+++|.+||++|.|.|.+|||||||
T Consensus 73 riw~TYR~~F~pig~t~~ttD~GWGCMlR~gQMllaqaL~~~~lGRdw~w~~~~~~~~~y~~il~~F~D~~~a~~SiHq~ 152 (409)
T KOG2674|consen 73 RLWFTYRRGFSPIGGTGPTTDCGWGCMLRCGQMLLAQALICRHLGRDWRWTDEKRLEEEYLKILNLFEDEPDAPFSIHQI 152 (409)
T ss_pred cceeeccCCCCcccCCCcccCcceeeEEehhHHHHHHHHHHhhcccccccccccccchHHHHHHHhhcCCCccccCHHHH
Confidence 99999999999999999999999999999999999999999999999999999888999999999999999999999999
Q ss_pred HHHHhHcCCCCCcccChhHHHHHHHHHHHHHhhhccCCCCCCCeEEEEeeC--------CCCCCCCCCceeecccccccc
Q 016269 227 LQAGKAYGLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSG--------DEDGERGGAPVVCIDDASRHC 298 (392)
Q Consensus 227 v~~G~~~gk~pGeWfGPs~va~~i~~L~~~~~~~~~~~~~~~~l~vyv~s~--------~~dge~g~~~~v~~dd~~~~~ 298 (392)
+++|...||++|+||||+++|+++++|.... .+.+.++||+.+ .+....++.+.+++.+..+.|
T Consensus 153 ~~~G~~~~~~~g~WfGP~~~a~~~~~L~~~~--------~~~~~~~~v~~~~~vv~~d~~~~~~~~~~~~~~~~~~~~~~ 224 (409)
T KOG2674|consen 153 VQMGVGEGKAVGSWFGPNTVAQVLKKLARFD--------PWSSLAVYVAMDNAVIIRDIVEKCRRGPLPALTIEDATKQS 224 (409)
T ss_pred HHHHhhccCCCccccCCcHHHHHHHHhhccC--------CCCCccEEEecccceEEeeeehhcccCCcccceecccchhh
Confidence 9999999999999999999999999998753 234556666543 234556678888888888888
Q ss_pred ccccCCCCCCccEEEEEeeeccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcccccccC
Q 016269 299 SVFSKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQPVINIG 378 (392)
Q Consensus 299 ~~~~~~~~~w~plLlLVPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~av~~~ 378 (392)
.++.....+|+|||||||||||++.|||.|+|+||++|++||||||+||||+||+||||||||+|||||||+||++|+++
T Consensus 225 ~~~~~~~~ewkpllLLVPvRLG~~~iNp~Yvp~lk~~f~~~q~lGI~GGkP~~S~YFvGyq~d~l~YLDPH~~Q~~V~vs 304 (409)
T KOG2674|consen 225 LEFSNGITEWKPLLLLIPLRLGITSINPSYVPALKECFEMPQSVGIIGGRPNHSLYFVGYQGDELFYLDPHYTQPAVEVS 304 (409)
T ss_pred cccCCCCCCCcceEEEEEeeecccccChHHHHHHHHHhcchhhceeccCCCCcceEEEEEecceEEEeCCccCccccccc
Confidence 88888889999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCCCCCCCccCC
Q 016269 379 KDDLEADTSTYHSE 392 (392)
Q Consensus 379 ~~~~~~~~~SyHC~ 392 (392)
+ +...+++||||+
T Consensus 305 ~-~~~~~~esfHC~ 317 (409)
T KOG2674|consen 305 K-AKDVPDETFHCQ 317 (409)
T ss_pred c-cCCCCccccccC
Confidence 4 223467999996
No 2
>PF03416 Peptidase_C54: Peptidase family C54 This family belongs to family C54 of the peptidase classification.; InterPro: IPR005078 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 C54 (Aut2 peptidase family, clan CA), which are a group of proteins of unknown function.; PDB: 2CY7_A 2ZZP_A 2D1I_B 2Z0E_A 2Z0D_A 2P82_D.
Probab=100.00 E-value=3.3e-89 Score=663.53 Aligned_cols=240 Identities=48% Similarity=0.884 Sum_probs=180.9
Q ss_pred chHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCC
Q 016269 136 GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGD 215 (392)
Q Consensus 136 ~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D 215 (392)
+.++|++||+||||||||+||+||+++++|||+|||||||||||||||||++|++||+|++......++.+.+||+||.|
T Consensus 2 ~~~~~~~d~~s~iwfTYR~~F~~i~~s~~tSD~GWGCmlRs~QMlLAqaL~~~~lgr~~~~~~~~~~~~~~~~il~~F~D 81 (278)
T PF03416_consen 2 NKEEFLKDFSSRIWFTYRKGFPPIPGSGLTSDCGWGCMLRSGQMLLAQALLRHHLGRDWRWPDNSDNNEEYRRILSLFQD 81 (278)
T ss_dssp THHHHHHHHHCSB---EEESS--TTTTS-SB-TTT-HHHHHHHHHHHHHHHHHHC-TT--TTTTSS--HHHHHHHHTTSS
T ss_pred cHHHHHHHHhhheEEeccCCCCCCCCCCcccCCCcccccchhHHHHHHHHHHHhhcccccccccccCcHHHHHHHHhcCC
Confidence 47899999999999999999999999999999999999999999999999999999999998776667889999999999
Q ss_pred CCCCCchhhHHHHHHhHc-CCCCCcccChhHHHHHHHHHHHHHhhhccCCCCCCCeEEEEeeCCCCCCCCCCceeecccc
Q 016269 216 SETSPFSIHNLLQAGKAY-GLAAGSWVGPYAMCRSWEALARCQRAETGLGCQSLPMAIYVVSGDEDGERGGAPVVCIDDA 294 (392)
Q Consensus 216 ~~~aPFSIH~iv~~G~~~-gk~pGeWfGPs~va~~i~~L~~~~~~~~~~~~~~~~l~vyv~s~~~dge~g~~~~v~~dd~ 294 (392)
.++||||||||+++|... ||+||+||||+++|++|++|++.+ ....++|||+.++ +++.+|+
T Consensus 82 ~~~apfSIh~i~~~g~~~~g~~~G~W~gPs~~~~~l~~l~~~~--------~~~~l~v~v~~d~---------~i~~~d~ 144 (278)
T PF03416_consen 82 SPSAPFSIHNIVQEGKSEFGKKPGEWFGPSTIAQALKKLVNEA--------DLSGLRVYVSSDG---------TIYYDDV 144 (278)
T ss_dssp STTSTTSHHHHHHHHHTT-T--TTS-B-HHHHHHHHHHHHCC---------TTT--EEEE-BTT---------EEEHHHH
T ss_pred CCCCcchHHHHHHHHHHHcCCCCcccCCHHHHHHHHHHHHHhc--------cccCceEEEeecc---------ccchhHH
Confidence 999999999999999987 999999999999999999999743 3346889998754 7888888
Q ss_pred ccccccc--cCCCCCCccEEEEEeeeccCCCCCcchHHHHHHhhCCCCceEEecCCCCceeEEEEEeCceeEEeCCCCcc
Q 016269 295 SRHCSVF--SKGQADWTPILLLVPLVLGLEKVNPRYIPTLRLTFTFPQSLGIVGGKPGASTYIVGVQEESAIYLDPHDVQ 372 (392)
Q Consensus 295 ~~~~~~~--~~~~~~w~plLlLVPlRLGld~iNp~Y~~~Lk~~f~lpqsvGIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q 372 (392)
.+.|... ......|+|||||||+|||+|++||+|+++|+++|++|||+|||||||++|+||||+|+|+|||||||+||
T Consensus 145 ~~~~~~~~~~~~~~~~~~vLlliplrLGl~~in~~Y~~~l~~~l~~pq~vGiiGG~p~~a~YfvG~~~d~liYLDPH~~Q 224 (278)
T PF03416_consen 145 EELCSNSNPTKQSSWWKPVLLLIPLRLGLDKINPKYIPSLKSLLSLPQSVGIIGGRPNSALYFVGFQGDQLIYLDPHYVQ 224 (278)
T ss_dssp HHHHCCS-S-----CE--EEEEEEEE-SSSS--GGGHHHHHHHCCSTTEEEEEEEETTEEEEEEEEETTEEEEE---SEE
T ss_pred HHHHhhhccccccccCceEEEEEEeecCCCCCCHHHHHHHHHHhCCcccceeeccCCCceEEEEEEccCeEEEECCCCCe
Confidence 8776532 12345789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCCCCCCCccCC
Q 016269 373 PVINIGKDDLEADTSTYHSE 392 (392)
Q Consensus 373 ~av~~~~~~~~~~~~SyHC~ 392 (392)
+|++....+.+.+.+||||+
T Consensus 225 ~a~~~~~~~~~~~~~s~h~~ 244 (278)
T PF03416_consen 225 PAVDSQNNNFELDDSSYHCS 244 (278)
T ss_dssp E-----TTS-----GGGC-S
T ss_pred eCCccCCCCCcCCCCceecC
Confidence 99998776665556899995
No 3
>PF07910 Peptidase_C78: Peptidase family C78; InterPro: IPR012462 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 entry contains UfSP1 and UfSP2, which are cysteine peptidases required for the processing and activation of Ubiquitin fold modifier 1 (Ufm1, IPR005375 from INTERPRO) and for its release from conjugated cellular proteins. UfSP1 and UfSP2 are 217 aa and 461 aa respectively [, ]. The peptidases belong to MEROPS peptidase family C78, clan CA. The UfSP2 family have an N-terminal extension with one or more zinc finger domains of the C2H2 type (IPR007087 from INTERPRO), which have been shown to be involved in protein:protein interaction. UfSP2 is present in most, if not all, multi-cellular organisms including plants, nematodes, flies, and mammals, whereas UfSP1 is not present in plants and nematodes []. ; PDB: 3OQC_B 2Z84_A.
Probab=98.04 E-value=4.8e-06 Score=79.44 Aligned_cols=47 Identities=23% Similarity=0.231 Sum_probs=29.3
Q ss_pred chHHHHHHhhCCC-C----------ceEEecCCCCceeEEEEEeC-----ceeEEeCCCCcccc
Q 016269 327 RYIPTLRLTFTFP-Q----------SLGIVGGKPGASTYIVGVQE-----ESAIYLDPHDVQPV 374 (392)
Q Consensus 327 ~Y~~~Lk~~f~lp-q----------svGIiGGrP~~SlYFvG~q~-----d~LiYLDPH~~Q~a 374 (392)
..++.|..-|+-. . .--++|| .+||.=+||+.- -+||.||||++-..
T Consensus 123 ~l~~~v~~yF~~~~~~~~~~~~t~~~Piylqh-~ghS~TIvGie~~~~g~~~LLVlDP~~~~~~ 185 (218)
T PF07910_consen 123 RLLDWVWNYFESGCGSPSQSRQTNKPPIYLQH-DGHSRTIVGIERNKDGEVNLLVLDPHYTGSD 185 (218)
T ss_dssp CGHHHHHHHHCCT--------------EEEEE-TTEEEEEEEEEE-TT--EEEEEE-TT--S-S
T ss_pred HHHHHHHHHhhcCCCccccccccCCCCeEeCc-cccceEEEEEEECCCCCEEEEEECCCCCCHH
Confidence 4445556665544 2 3445666 999999999974 48999999998763
No 4
>KOG2433 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.38 E-value=0.00041 Score=71.58 Aligned_cols=69 Identities=25% Similarity=0.428 Sum_probs=40.7
Q ss_pred ccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcC---CCCCCCchhhHHHHHHhHcCCCCCcc
Q 016269 164 ITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFG---DSETSPFSIHNLLQAGKAYGLAAGSW 240 (392)
Q Consensus 164 ~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~---D~~~aPFSIH~iv~~G~~~gk~pGeW 240 (392)
-.-|.||||..||-|-+-.--.+ -|- . +... +.|++|-+..- |.|.+ | +---+|
T Consensus 402 ~idD~GWGCAYRSlQTIcSWFil---qGY--T-~~pI---PtHrEiQqaLvdi~DKpA~-F-------------VGSrQW 458 (577)
T KOG2433|consen 402 GIDDSGWGCAYRSLQTICSWFIL---QGY--T-DKPI---PTHREIQQALVDIQDKPAK-F-------------VGSRQW 458 (577)
T ss_pred ccccCCcchhhHhHHHHHHHHHH---cCc--c-CCCC---CcHHHHHHHHHhccCcccc-e-------------ecccce
Confidence 35799999999999976554333 221 0 1111 23444433332 33311 1 112379
Q ss_pred cChhHHHHHHHHHHH
Q 016269 241 VGPYAMCRSWEALAR 255 (392)
Q Consensus 241 fGPs~va~~i~~L~~ 255 (392)
.|-..+..+|..|++
T Consensus 459 IGStEis~vLn~ll~ 473 (577)
T KOG2433|consen 459 IGSTEISFVLNELLK 473 (577)
T ss_pred ecchhHHHHHHHHhc
Confidence 999999999998876
No 5
>KOG2674 consensus Cysteine protease required for autophagy - Apg4p/Aut2p [Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]
Probab=94.59 E-value=0.0029 Score=65.38 Aligned_cols=134 Identities=11% Similarity=0.032 Sum_probs=92.9
Q ss_pred cccccccccccccccccccCCChhHHHHHHhhcchHHHHHHHhhCCCCCCCCCCCCcEEEcCeeecCCCcccccccCCCc
Q 016269 56 VFETYSESSASEKKAVHNKSNGWTAAVKRLVTAGSMRRIHERVLGPSRTGISSSTSDIWLLGVCHKIAQDEALGDAAGNN 135 (392)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pvwlLG~~Y~~~~~~~~~~~~~~~ 135 (392)
+-=|||.-=+.-.....+.+.||+|++|. |.|.-+|-.+.. -||+-+....+..
T Consensus 74 iw~TYR~~F~pig~t~~ttD~GWGCMlR~----gQMllaqaL~~~--------------~lGRdw~w~~~~~-------- 127 (409)
T KOG2674|consen 74 LWFTYRRGFSPIGGTGPTTDCGWGCMLRC----GQMLLAQALICR--------------HLGRDWRWTDEKR-------- 127 (409)
T ss_pred ceeeccCCCCcccCCCcccCcceeeEEeh----hHHHHHHHHHHh--------------hcccccccccccc--------
Confidence 34467766555555668999999999987 777655443322 1344333332211
Q ss_pred chHHHHhhccceEEEeecCCCCCCCCCcccccCCccccccchhhHHHHHHHHhhcCCCCCCCCCCCCcHHHHHHhhhcCC
Q 016269 136 GLAEFNQDFSSRILISYRKGFDPIGDSKITSDVGWGCMLRSSQMLVAQALLFHRLGRPWRKPLQKPFDREYVEILHLFGD 215 (392)
Q Consensus 136 ~~~~f~~Df~SriWfTYRk~F~pI~~s~~TSD~GWGCMLRsgQMLLAqaL~~h~LGRdwr~~~~~~~~~~~~~IL~lF~D 215 (392)
.+ ..|++ .++.+.+|+|+.+|.++|++.+...+ +.|-+||++
T Consensus 128 ------~~------~~y~~--------il~~F~D~~~a~~SiHq~~~~G~~~~------------------~~~g~WfGP 169 (409)
T KOG2674|consen 128 ------LE------EEYLK--------ILNLFEDEPDAPFSIHQIVQMGVGEG------------------KAVGSWFGP 169 (409)
T ss_pred ------cc------hHHHH--------HHHhhcCCCccccCHHHHHHHHhhcc------------------CCCccccCC
Confidence 01 12332 57889999999999999999998653 246789999
Q ss_pred CCCCCchhhHHHHHHhHcCCCCCcccChhHHHHHHHHHHHHH
Q 016269 216 SETSPFSIHNLLQAGKAYGLAAGSWVGPYAMCRSWEALARCQ 257 (392)
Q Consensus 216 ~~~aPFSIH~iv~~G~~~gk~pGeWfGPs~va~~i~~L~~~~ 257 (392)
++.|.+ +...+...+++++.|+++-..+.+++......
T Consensus 170 ~~~a~~----~~~L~~~~~~~~~~~~v~~~~~vv~~d~~~~~ 207 (409)
T KOG2674|consen 170 NTVAQV----LKKLARFDPWSSLAVYVAMDNAVIIRDIVEKC 207 (409)
T ss_pred cHHHHH----HHHhhccCCCCCccEEEecccceEEeeeehhc
Confidence 887776 66677778899999999998888877765543
No 6
>KOG4696 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.70 E-value=0.22 Score=50.25 Aligned_cols=38 Identities=39% Similarity=0.678 Sum_probs=28.8
Q ss_pred EeecCCCCCCCC----CcccccCCccccccchhhHHHHHHHH
Q 016269 150 ISYRKGFDPIGD----SKITSDVGWGCMLRSSQMLVAQALLF 187 (392)
Q Consensus 150 fTYRk~F~pI~~----s~~TSD~GWGCMLRsgQMLLAqaL~~ 187 (392)
...-|||.-|+. ...--|.||||..|+.|||++..|..
T Consensus 173 ~awnkGFDi~~ALH~D~R~~G~K~W~~~~~~~qml~s~gl~~ 214 (393)
T KOG4696|consen 173 SAWNKGFDIIEALHTDVRSLGDKGWGCGYRNFQMLDSEGLAQ 214 (393)
T ss_pred HHHhcccchhhhhcccchhcccccccccchhHHHHHHHHHHh
Confidence 345677876652 22345789999999999999999975
No 7
>KOG4696 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.57 E-value=0.96 Score=45.82 Aligned_cols=21 Identities=43% Similarity=0.841 Sum_probs=19.1
Q ss_pred ccCCccccccchhhHHHHHHH
Q 016269 166 SDVGWGCMLRSSQMLVAQALL 186 (392)
Q Consensus 166 SD~GWGCMLRsgQMLLAqaL~ 186 (392)
=|.||||.-|.+||.++.-|.
T Consensus 125 ~d~Gwgcgw~niqmq~shll~ 145 (393)
T KOG4696|consen 125 IDRGWGCGWRNIQMQISHLLY 145 (393)
T ss_pred cccccCccccchHHHHHHHHh
Confidence 589999999999999999765
No 8
>PF13529 Peptidase_C39_2: Peptidase_C39 like family; PDB: 3ERV_A.
Probab=50.09 E-value=21 Score=29.46 Aligned_cols=30 Identities=27% Similarity=0.354 Sum_probs=22.9
Q ss_pred CceEEecCCCCceeEEEEEeCce-eEEeCCC
Q 016269 340 QSLGIVGGKPGASTYIVGVQEES-AIYLDPH 369 (392)
Q Consensus 340 qsvGIiGGrP~~SlYFvG~q~d~-LiYLDPH 369 (392)
..-+.-++...|.+-++|+.++. +++.||.
T Consensus 114 ~~~~~~~~~~~H~vvi~Gy~~~~~~~v~DP~ 144 (144)
T PF13529_consen 114 NGDGYDGTYGGHYVVIIGYDEDGYVYVNDPW 144 (144)
T ss_dssp TTEEEEE-TTEEEEEEEEE-SSE-EEEE-TT
T ss_pred CCCCcCCCcCCEEEEEEEEeCCCEEEEeCCC
Confidence 44556777888999999999999 9999995
No 9
>PF15644 Tox-PL: Papain fold toxin 1; PDB: 3B21_A.
Probab=46.16 E-value=18 Score=30.76 Aligned_cols=24 Identities=38% Similarity=0.772 Sum_probs=17.0
Q ss_pred cCCCCceeEEEEEeCceeEEeCCCC
Q 016269 346 GGKPGASTYIVGVQEESAIYLDPHD 370 (392)
Q Consensus 346 GGrP~~SlYFvG~q~d~LiYLDPH~ 370 (392)
||.+.|++..+ +++..+.||||=.
T Consensus 84 gg~~gHa~nvv-~~~G~i~~~D~Q~ 107 (111)
T PF15644_consen 84 GGGPGHAFNVV-NQNGKIVFLDPQS 107 (111)
T ss_dssp ----TTEEEEE-EE-SSEEEEBTTT
T ss_pred ccccceEEEEE-eCCCeEEEEeCCC
Confidence 44459999999 8888999999953
No 10
>cd02549 Peptidase_C39A A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage is mediated by the transporter as part of the secretion process. Bacteriocins are antibiotic proteins secreted by some species of bacteria that inhibit the growth of other bacterial species. The bacteriocin is synthesized as a precursor with an N-terminal leader peptide, and processing involves removal of the leader peptide by cleavage at a Gly-Gly bond, followed by translocation of the mature bacteriocin across the cytoplasmic membrane. Most endopeptidases of family C39 are N-terminal domains in larger proteins (ABC transporters) that serve both functions. The proposed protease active site is conserved in this sub-family of proteins with a single peptidase domain, which are
Probab=41.04 E-value=44 Score=28.06 Aligned_cols=27 Identities=15% Similarity=0.191 Sum_probs=23.0
Q ss_pred ecCCCCceeEEEEEe-CceeEEeCCCCc
Q 016269 345 VGGKPGASTYIVGVQ-EESAIYLDPHDV 371 (392)
Q Consensus 345 iGGrP~~SlYFvG~q-~d~LiYLDPH~~ 371 (392)
.++..+|.+-++|+. ++.+++.||..-
T Consensus 89 ~~~~~gH~vVv~g~~~~~~~~i~DP~~~ 116 (141)
T cd02549 89 SITPSGHAMVVIGYDRKGNVYVNDPGGG 116 (141)
T ss_pred ccCCCCeEEEEEEEcCCCCEEEECCCCC
Confidence 466778999999999 889999999754
No 11
>PF04843 Herpes_teg_N: Herpesvirus tegument protein, N-terminal conserved region; InterPro: IPR006928 Herpesvirus UL36 encodes the largest herpes simplex virus protein, also designated VP1/2, which is a component of the virion tegument. The N-terminal domain, of approximately 500aa, encodes a ubiquitin-specific protease (USP) that belongs to MEROPS peptidase family C76 (UL36 deubiquitinylating peptidase, clan CA). It is conserved across the herpesviridae and accumulates as a cleavage product of UL36 during late viral replication []. The conservation of UL36-USP across all members of the herpesviridae and the absolute conservation of the active site residues imply that UL36-USP plays an important role the herpesvirus life cycle.
Probab=21.31 E-value=1.9e+02 Score=26.90 Aligned_cols=43 Identities=19% Similarity=0.274 Sum_probs=27.1
Q ss_pred chHHHHHHhh-----CCCCce-EEecCCCCceeEEEEEeCceeEEeCCCCccc
Q 016269 327 RYIPTLRLTF-----TFPQSL-GIVGGKPGASTYIVGVQEESAIYLDPHDVQP 373 (392)
Q Consensus 327 ~Y~~~Lk~~f-----~lpqsv-GIiGGrP~~SlYFvG~q~d~LiYLDPH~~Q~ 373 (392)
.++..|+.++ .-+|.+ =|+|++ .-|+|+- +|..+++|||-.-.
T Consensus 105 ~~~~~l~~~~~~~~~~~~~y~l~t~g~~-~~av~~~---~~~~yiFDPH~~~~ 153 (172)
T PF04843_consen 105 PCIGSLDFLLYAWYKRTPQYILVTIGAL-TIAVIRT---GDRYYIFDPHSRDD 153 (172)
T ss_pred chhHhHHHHHHHhccCCCcEEEEEECCc-eEEEEEe---CCcEEEECCCCCCC
Confidence 3455555555 224443 455555 6677765 99999999996543
Done!