Query 018971
Match_columns 348
No_of_seqs 132 out of 942
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 05:36:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018971.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018971hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2606 OTU (ovarian tumor)-li 100.0 3.7E-34 8.1E-39 273.5 -7.6 292 8-341 2-300 (302)
2 PF02338 OTU: OTU-like cystein 99.9 5.5E-24 1.2E-28 176.1 8.3 112 207-333 1-121 (121)
3 KOG3288 OTU-like cysteine prot 99.7 3E-18 6.4E-23 162.3 7.1 126 200-341 109-235 (307)
4 PF10275 Peptidase_C65: Peptid 99.5 8.9E-13 1.9E-17 123.2 13.1 98 239-337 139-243 (244)
5 KOG2605 OTU (ovarian tumor)-li 99.4 2.7E-13 5.9E-18 135.1 4.3 128 197-339 214-344 (371)
6 KOG3991 Uncharacterized conser 99.1 2.2E-10 4.8E-15 107.8 10.1 99 237-338 154-255 (256)
7 COG5539 Predicted cysteine pro 98.9 4.6E-10 1E-14 108.5 0.4 125 200-337 170-305 (306)
8 COG5539 Predicted cysteine pro 98.6 9.2E-09 2E-13 99.6 1.9 114 204-337 115-230 (306)
9 PF05415 Peptidase_C36: Beet n 93.1 0.37 8E-06 40.4 6.7 95 206-335 3-103 (104)
10 PF05381 Peptidase_C21: Tymovi 50.9 88 0.0019 26.9 7.4 90 209-335 2-94 (104)
11 PRK09784 hypothetical protein; 33.4 23 0.00049 35.1 1.4 22 198-219 197-218 (417)
12 PF05412 Peptidase_C33: Equine 29.4 37 0.0008 29.3 1.9 16 207-222 5-20 (108)
13 KOG2606 OTU (ovarian tumor)-li 27.7 40 0.00086 33.8 2.0 25 238-262 188-212 (302)
14 KOG2605 OTU (ovarian tumor)-li 23.0 36 0.00079 34.9 0.9 43 258-300 3-45 (371)
15 PF07418 PCEMA1: Acidic phosph 22.7 53 0.0012 32.5 1.8 39 20-63 2-45 (282)
No 1
>KOG2606 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=3.7e-34 Score=273.54 Aligned_cols=292 Identities=27% Similarity=0.313 Sum_probs=203.4
Q ss_pred eEEeeeccccccceEEecccccccccceeeeeeecCCCceeeeecccCcccccccceeEEeecCCccccccccccccccc
Q 018971 8 MIVSTSICACAKNVVNLGGRFQGQMGGNICGVTYRGPSSSCCFYLCSGQSKKNYAGISRTISSSSLNVLQPFQATCFSPG 87 (348)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~ 87 (348)
|++..++..|.+|...|. +|-+.+-......+..+..|.+.. ++.|+.|.+....++. -+-|++++.+++..
T Consensus 2 ~~~~~~~~~~~~~e~iLa----RHr~E~keLq~ki~~mKk~a~k~~-k~~rK~~~~~~~~le~---el~qkH~kEL~~~~ 73 (302)
T KOG2606|consen 2 MTCMDSEQDEESNEEILA----RHRRERKELQAKITSMKKAAPKGN-KKKRKELTEDIAKLEK---ELSQKHKKELEKLK 73 (302)
T ss_pred cCCccchhhhhhHHHHHH----HHHHHHHHHHHHHHHHHHhhhhcc-HHHHHHHHHHHHHHHh---HHHHHHHHHHHhhc
Confidence 677889999999999998 999999999999999999998887 8999999985555544 24579999999999
Q ss_pred ccccCCCCCCcceeeeeecccccceeeeeeecccceeeeecccCCCcccccccCcccccCCCCCCcccceeeeeeecCcc
Q 018971 88 LTKPRCNLRPLTIRSFIGSRGSQKRHIEISLACRSMKMRLLVPSQGVLPKLKLNAGPIDWPKGCASAGLICGLLVCYSSS 167 (348)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~s~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (348)
+... +...++....-|+..+..+|.++- .+-.+. ..+.+.-|-..+-.-.....-..++.++.
T Consensus 74 ~~~~--------------~e~~~~e~~~~s~l~~~a~~~~~~--~ee~P~-~sKa~k~r~k~r~e~r~~e~~~~~e~~~~ 136 (302)
T KOG2606|consen 74 LINE--------------SEVTPKENLIESVLSPIANMSLEN--KEETPR-QSKARKRREKKRKEERKREAEKIAEEESL 136 (302)
T ss_pred ccCc--------------cccCccccchhhhhcccccccccc--cccCCc-ccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9887 456677778888888888876432 110000 01111111111111111111122222221
Q ss_pred hhhhhhcccccCCCCccccccccccccccccCCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHH
Q 018971 168 KAHAEAADEKEDGEEDYDLSNVKYSHGKKVYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVA 247 (348)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~gL~I~~IpGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vv 247 (348)
. -.+..+ ..+..+ .....-.++|.+++||+||+|||+||+|||..+++...+.+.||++.+++||.++.
T Consensus 137 ~---~~~~~k-------~~E~~k-~~~il~~~~l~~~~Ip~DG~ClY~aI~hQL~~~~~~~~~v~kLR~~~a~Ymr~H~~ 205 (302)
T KOG2606|consen 137 S---NQADAK-------SMEKEK-LAQILEERGLKMFDIPADGHCLYAAISHQLKLRSGKLLSVQKLREETADYMREHVE 205 (302)
T ss_pred h---cCCchh-------hhHHHH-HHHHHHhccCccccCCCCchhhHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHH
Confidence 0 001110 011111 12233346899999999999999999999999877767767777667777777665
Q ss_pred HHHhcChhhhhhcccc--CHHHHHHHhhCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEE
Q 018971 248 DEFIKRREETEWFIEG--DFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRV 325 (348)
Q Consensus 248 dy~~~n~e~fe~fie~--dfd~Y~~~M~k~gtWGG~iEL~ALA~ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~L 325 (348)
|++--..+..++++.+ +|++||++|++++.|||++||.|+|++|++||.||+.+. .+.+||++|++++||.|
T Consensus 206 df~pf~~~eet~d~~~~~~f~~Yc~eI~~t~~WGgelEL~AlShvL~~PI~Vy~~~~------p~~~~geey~kd~pL~l 279 (302)
T KOG2606|consen 206 DFLPFLLDEETGDSLGPEDFDKYCREIRNTAAWGGELELKALSHVLQVPIEVYQADG------PILEYGEEYGKDKPLIL 279 (302)
T ss_pred HhhhHhcCccccccCCHHHHHHHHHHhhhhccccchHHHHHHHHhhccCeEEeecCC------CceeechhhCCCCCeee
Confidence 5442223334444433 799999999999999999999999999999999999752 25789999987899999
Q ss_pred EEc----CCC-cceeeecCCC
Q 018971 326 LYH----GFG-HYDALQNLGH 341 (348)
Q Consensus 326 sYh----g~g-HYDSL~~~~~ 341 (348)
+|| +.| ||||+.+..+
T Consensus 280 vY~rH~y~LGeHYNS~~~~~n 300 (302)
T KOG2606|consen 280 VYHRHAYGLGEHYNSVTPLKN 300 (302)
T ss_pred ehHHhHHHHHhhhcccccccc
Confidence 996 344 9999987654
No 2
>PF02338 OTU: OTU-like cysteine protease; InterPro: IPR003323 This is a group of proteins found primarily in viruses, eukaryotes and in the pathogenic bacterium Chlamydia pneumoniae. In viruses they are annotated as replicase or RNA-dependent RNA polymerase. The eukaryotic sequences are related to the Ovarian Tumour (OTU) gene in Drosophila, cezanne deubiquitinating peptidase and tumor necrosis factor, alpha-induced protein 3 (MEROPS peptidase family C64) and otubain 1 and otubain 2 (MEROPS peptidase family C65). None of these proteins has a known biochemical function but low sequence similarity with the polyprotein regions of arteriviruses, and conserved cysteine and histidine, and possibly the aspartate, residues suggests that those not yet recognised as peptidases could possess cysteine protease activity [].; PDB: 2VFJ_C 3DKB_F 3PHW_A 3PHU_B 3PHX_A 3BY4_A 3C0R_C 3PRM_C 3PRP_C 3ZRH_A ....
Probab=99.90 E-value=5.5e-24 Score=176.08 Aligned_cols=112 Identities=39% Similarity=0.689 Sum_probs=88.5
Q ss_pred CCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHh-cChhhhhhccccCHHHHHHHhhCCCCcCCHHHHH
Q 018971 207 PGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFI-KRREETEWFIEGDFDLYVSQIRKPHVWGGEPELL 285 (348)
Q Consensus 207 pGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~-~n~e~fe~fie~dfd~Y~~~M~k~gtWGG~iEL~ 285 (348)
||||||||||||+||+...+. .+..|.+||+.+++||+ .+++.|++|++++ +|+++++|||++||+
T Consensus 1 pgDGnClF~Avs~~l~~~~~~-------~~~~~~~lR~~~~~~l~~~~~~~~~~~~~~~------~~~~~~~Wg~~~el~ 67 (121)
T PF02338_consen 1 PGDGNCLFRAVSDQLYGDGGG-------SEDNHQELRKAVVDYLRDKNRDKFEEFLEGD------KMSKPGTWGGEIELQ 67 (121)
T ss_dssp -SSTTHHHHHHHHHHCTT-SS-------STTTHHHHHHHHHHHHHTHTTTHHHHHHHHH------HHTSTTSHEEHHHHH
T ss_pred CCCccHHHHHHHHHHHHhcCC-------CHHHHHHHHHHHHHHHHHhccchhhhhhhhh------hhccccccCcHHHHH
Confidence 799999999999999954311 13578999999999999 9999999998766 999999999999999
Q ss_pred HHHHhcCCCEEEEeecCCCCCceEEEEcCC---CCCCCCeEEEEEcC-----CCcc
Q 018971 286 MASHVLRMPITVYMHDKDAGGLISIAEYGQ---EYGKEKPIRVLYHG-----FGHY 333 (348)
Q Consensus 286 ALA~ll~~~I~Vy~~d~~s~g~i~I~~~G~---e~~~~~pI~LsYhg-----~gHY 333 (348)
|+|++|+++|+||+... +......++.. .....++|.|.|++ .+||
T Consensus 68 a~a~~~~~~I~v~~~~~--~~~~~~~~~~~~~~~~~~~~~i~l~~~~~l~~~~~Hy 121 (121)
T PF02338_consen 68 ALANVLNRPIIVYSSSD--GDNVVFIKFTGKYPPLESPPPICLCYHGHLYYTGNHY 121 (121)
T ss_dssp HHHHHHTSEEEEECETT--TBEEEEEEESCEESTTTTTTSEEEEEETEEEEETTEE
T ss_pred HHHHHhCCeEEEEEcCC--CCccceeeecCccccCCCCCeEEEEEcCCccCCCCCC
Confidence 99999999999998732 22222333322 22356899999997 7798
No 3
>KOG3288 consensus OTU-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=3e-18 Score=162.29 Aligned_cols=126 Identities=25% Similarity=0.384 Sum_probs=109.4
Q ss_pred CcEEEeeCCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHhcChhhh-hhccccCHHHHHHHhhCCCCc
Q 018971 200 DYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREET-EWFIEGDFDLYVSQIRKPHVW 278 (348)
Q Consensus 200 gL~I~~IpGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~~n~e~f-e~fie~dfd~Y~~~M~k~gtW 278 (348)
-+.++.||.|+.|||+||+..+....+. -..+||+.++.....|++.| +++++..-.+||+||+++..|
T Consensus 109 vl~~~vvp~DNSCLF~ai~yv~~k~~~~----------~~~elR~iiA~~Vasnp~~yn~AiLgK~n~eYc~WI~k~dsW 178 (307)
T KOG3288|consen 109 VLSRRVVPDDNSCLFTAIAYVIFKQVSN----------RPYELREIIAQEVASNPDKYNDAILGKPNKEYCAWILKMDSW 178 (307)
T ss_pred eeEEEeccCCcchhhhhhhhhhcCccCC----------CcHHHHHHHHHHHhcChhhhhHHHhCCCcHHHHHHHcccccc
Confidence 4788999999999999999988743221 12689999999999999987 688999999999999999999
Q ss_pred CCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeecCCC
Q 018971 279 GGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNLGH 341 (348)
Q Consensus 279 GG~iEL~ALA~ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~LsYhg~gHYDSL~~~~~ 341 (348)
||.+||..||+.|++.|.|+..+ + ..|..||++.+....+.|.|.|. |||+|.+...
T Consensus 179 GGaIElsILS~~ygveI~vvDiq--t---~rid~fged~~~~~rv~llydGI-HYD~l~m~~~ 235 (307)
T KOG3288|consen 179 GGAIELSILSDYYGVEICVVDIQ--T---VRIDRFGEDKNFDNRVLLLYDGI-HYDPLAMNEF 235 (307)
T ss_pred CceEEeeeehhhhceeEEEEecc--e---eeehhcCCCCCCCceEEEEeccc-ccChhhhccC
Confidence 99999999999999999999764 2 35789998876788999999998 9999988654
No 4
>PF10275 Peptidase_C65: Peptidase C65 Otubain; InterPro: IPR019400 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 family of proteins is a highly specific ubiquitin iso-peptidase that removes ubiquitin from proteins. The modification of cellular proteins by ubiquitin (Ub) is an important event that underlies protein stability and function in eukaryotes, as it is a dynamic and reversible process. Otubain carries several key conserved domains: (i) the OTU (ovarian tumour domain) in which there is an active cysteine protease triad (ii) a nuclear localisation signal, (iii) a Ub interaction motif (UIM)-like motif phi-xx-A-xxxs-xx-Ac (where phi indicates an aromatic amino acid, x indicates any amino acid and Ac indicates an acidic amino acid), (iv) a Ub-associated (UBA)-like domain and (v) the LxxLL motif. ; PDB: 4DDG_C 3VON_O 2ZFY_A 4DHZ_A 4DDI_C 1TFF_A 4DHJ_I 4DHI_B.
Probab=99.45 E-value=8.9e-13 Score=123.22 Aligned_cols=98 Identities=22% Similarity=0.334 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHHhcChhhhhhccc----cCHHHHH-HHhhCCCCcCCHHHHHHHHHhcCCCEEEEeecCC-CCCceEEEE
Q 018971 239 ADDLRAKVADEFIKRREETEWFIE----GDFDLYV-SQIRKPHVWGGEPELLMASHVLRMPITVYMHDKD-AGGLISIAE 312 (348)
Q Consensus 239 h~eLR~~vvdy~~~n~e~fe~fie----~dfd~Y~-~~M~k~gtWGG~iEL~ALA~ll~~~I~Vy~~d~~-s~g~i~I~~ 312 (348)
...+|-.+..||..|.++|++|++ .++++|| +.+...+.-.+++.+.|||++|+++|.|+..|+. ++..+....
T Consensus 139 V~flRLlts~~l~~~~d~y~~fi~~~~~~tve~~C~~~Vep~~~Ead~v~i~ALa~aL~v~i~v~yld~~~~~~~~~~~~ 218 (244)
T PF10275_consen 139 VIFLRLLTSAYLKSNSDEYEPFIDGLEYLTVEEFCSQEVEPMGKEADHVQIIALAQALGVPIRVEYLDRSVEGDEVNRHE 218 (244)
T ss_dssp HHHHHHHHHHHHHHTHHHHGGGSSTT--S-HHHHHHHHTSSTT--B-HHHHHHHHHHHT--EEEEESSSSGCSTTSEEEE
T ss_pred HHHHHHHHHHHHHhhHHHHhhhhcccccCCHHHHHHhhcccccccchhHHHHHHHHHhCCeEEEEEecCCCCCCcccccc
Confidence 346777778888888899999997 5699999 5777789999999999999999999999999975 444455566
Q ss_pred cCCCC-CCCCeEEEEEcCCCcceeee
Q 018971 313 YGQEY-GKEKPIRVLYHGFGHYDALQ 337 (348)
Q Consensus 313 ~G~e~-~~~~pI~LsYhg~gHYDSL~ 337 (348)
+.++. +..+.|.|+|.. ||||.|.
T Consensus 219 ~~~~~~~~~~~i~LLyrp-gHYdIly 243 (244)
T PF10275_consen 219 FPPDNESQEPQITLLYRP-GHYDILY 243 (244)
T ss_dssp ES-SSTTSS-SEEEEEET-BEEEEEE
T ss_pred CCCccCCCCCEEEEEEcC-Ccccccc
Confidence 64322 246789999997 4999986
No 5
>KOG2605 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=2.7e-13 Score=135.13 Aligned_cols=128 Identities=22% Similarity=0.263 Sum_probs=96.9
Q ss_pred ccCCcEEEeeCCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHhcChhhhhhccccCHHHHHHHhhCCC
Q 018971 197 VYTDYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPH 276 (348)
Q Consensus 197 ~~~gL~I~~IpGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~~n~e~fe~fie~dfd~Y~~~M~k~g 276 (348)
...||.++.|..||||+|||+|+|++.+ ++.|++.|++++|++..+++.|+-|+.++|.+|+.++++++
T Consensus 214 ~~~g~e~~Kv~edGsC~fra~aDQvy~d-----------~e~~~~~~~~~~dq~~~e~~~~~~~vt~~~~~y~k~kr~~~ 282 (371)
T KOG2605|consen 214 KHFGFEYKKVVEDGSCLFRALADQVYGD-----------DEQHDHNRRECVDQLKKERDFYEDYVTEDFTSYIKRKRADG 282 (371)
T ss_pred HHhhhhhhhcccCCchhhhccHHHhhcC-----------HHHHHHHHHHHHHHHhhcccccccccccchhhcccccccCC
Confidence 3358999999999999999999999953 57899999999999999999999999999999999999999
Q ss_pred CcCCHHHHHHHHH---hcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeeecC
Q 018971 277 VWGGEPELLMASH---VLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQNL 339 (348)
Q Consensus 277 tWGG~iEL~ALA~---ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~LsYhg~gHYDSL~~~ 339 (348)
.||+++|+||+|. ....++.+.+.... -.+.+.+-.++ ....+++.|.-.-||+..+..
T Consensus 283 ~~gnhie~Qa~a~~~~~~~~~~~~~~~~~t--~~~~~~~~~~~--~~~~~~~n~~~~~h~~~~~~~ 344 (371)
T KOG2605|consen 283 EPGNHIEQQAAADIYEEIEKPLNITSFKDT--CYIQTPPAIEE--SVKMEKYNFWVEVHYNTARHS 344 (371)
T ss_pred CCcchHHHhhhhhhhhhccccceeeccccc--ceeccCccccc--chhhhhhcccchhhhhhcccc
Confidence 9999999999995 55666666665321 11111111111 122233444333399988764
No 6
>KOG3991 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.14 E-value=2.2e-10 Score=107.75 Aligned_cols=99 Identities=19% Similarity=0.239 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHHHhcChhhhhhcccc--CHHHHHHHhhC-CCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEc
Q 018971 237 ELADDLRAKVADEFIKRREETEWFIEG--DFDLYVSQIRK-PHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY 313 (348)
Q Consensus 237 ~~h~eLR~~vvdy~~~n~e~fe~fie~--dfd~Y~~~M~k-~gtWGG~iEL~ALA~ll~~~I~Vy~~d~~s~g~i~I~~~ 313 (348)
....+||-.+..+++.+.|.|+||+++ ++++||++--. ...=.||++|.||++++++.|+|-..|+.+++...-+.|
T Consensus 154 yiV~ylRLvtS~~ik~~adfy~pFI~e~~tV~~fC~~eVEPm~kesdhi~I~ALs~Al~i~irVey~dr~~~~~~~hH~f 233 (256)
T KOG3991|consen 154 YIVMYLRLVTSGFIKSNADFYQPFIDEGMTVKAFCTQEVEPMYKESDHIHITALSQALGIRIRVEYVDRGSGDTVNHHDF 233 (256)
T ss_pred HHHHHHHHHHHHHHhhChhhhhccCCCCCcHHHHHHhhcchhhhccCceeHHHHHhhhCceEEEEEecCCCCCCCCCCcC
Confidence 345678888888888999999999976 79999986433 366799999999999999999999999876543322333
Q ss_pred CCCCCCCCeEEEEEcCCCcceeeec
Q 018971 314 GQEYGKEKPIRVLYHGFGHYDALQN 338 (348)
Q Consensus 314 G~e~~~~~pI~LsYhg~gHYDSL~~ 338 (348)
-+ +..+.|.|+|.- ||||.|..
T Consensus 234 pe--~s~P~I~LLYrp-GHYdilY~ 255 (256)
T KOG3991|consen 234 PE--ASAPEIYLLYRP-GHYDILYK 255 (256)
T ss_pred cc--ccCceEEEEecC-CccccccC
Confidence 22 346779999985 59999864
No 7
>COG5539 Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=4.6e-10 Score=108.48 Aligned_cols=125 Identities=15% Similarity=0.046 Sum_probs=83.8
Q ss_pred CcEEEeeCCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHhcChhhhhhcc-c------cCHHHHHHHh
Q 018971 200 DYSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFI-E------GDFDLYVSQI 272 (348)
Q Consensus 200 gL~I~~IpGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~~n~e~fe~fi-e------~dfd~Y~~~M 272 (348)
.+.--+++|||+|+|-+|++||..+.- .-.+ +....+|-.-..|...+.+.|..+. + .+|++|+.+|
T Consensus 170 ~i~k~d~~~dG~ieia~iS~~l~v~i~----~Vdv--~~~~~dr~~~~~~~q~~~i~f~g~hfD~~t~~m~~~dt~~ne~ 243 (306)
T COG5539 170 WIVKPDSQGDGCIEIAIISDQLPVRIH----VVDV--DKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVLWDTYVNEV 243 (306)
T ss_pred hhhccccCCCceEEEeEeccccceeee----eeec--chhHHhhccCChhhhhhhhhhcccccchhhhhcchHHHHHhhh
Confidence 455568999999999999999975421 0111 1113344443444444455665553 1 3699999999
Q ss_pred hCCCCcCCHHHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEE--c--CCCcceeee
Q 018971 273 RKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLY--H--GFGHYDALQ 337 (348)
Q Consensus 273 ~k~gtWGG~iEL~ALA~ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~LsY--h--g~gHYDSL~ 337 (348)
+.+..||+.+|+++||++|++|++++... ++ +.+|+.= +.+...-+.| | +.||||+++
T Consensus 244 ~~~a~~g~~~ei~qLas~lk~~~~~~nT~----~~--~ik~n~c-~~~~~~e~~~~~Ha~a~GH~n~~~ 305 (306)
T COG5539 244 LFDASDGITIEIQQLASLLKNPHYYTNTA----SP--SIKCNIC-GTGFVGEKDYYAHALATGHYNFGE 305 (306)
T ss_pred cccccccchHHHHHHHHHhcCceEEeecC----Cc--eEEeecc-ccccchhhHHHHHHHhhcCccccC
Confidence 99999999999999999999999999854 22 2344422 1222344555 4 567999874
No 8
>COG5539 Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=9.2e-09 Score=99.58 Aligned_cols=114 Identities=28% Similarity=0.282 Sum_probs=94.8
Q ss_pred EeeCCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHhcChhhhhhcc-ccCHHHHHHHhhCCCCcC-CH
Q 018971 204 IGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFI-EGDFDLYVSQIRKPHVWG-GE 281 (348)
Q Consensus 204 ~~IpGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~~n~e~fe~fi-e~dfd~Y~~~M~k~gtWG-G~ 281 (348)
.+.-.|..|+|+|.+..++. ....+||+.|.-+..+|+|.|.+.+ +-+.-+|++++.++..|| |+
T Consensus 115 ~p~~~d~srl~q~~~~~l~~-------------asv~~lrE~vs~Ev~snPDl~n~~i~~~~~i~y~~~i~k~d~~~dG~ 181 (306)
T COG5539 115 MPGQDDNSRLFQAERYSLRD-------------ASVAKLREVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQGDGC 181 (306)
T ss_pred CCCCCchHHHHHHHHhhhhh-------------hhHHHHHHHHHHHHhhCccccchhhcCcchHHHHHhhhccccCCCce
Confidence 34446899999999988762 2578999999999999999997765 568999999999999999 99
Q ss_pred HHHHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcCCCcceeee
Q 018971 282 PELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGHYDALQ 337 (348)
Q Consensus 282 iEL~ALA~ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~LsYhg~gHYDSL~ 337 (348)
+|+.++++.|++.|+|...+.+ ....|++.. ....+.+.|.|. |||...
T Consensus 182 ieia~iS~~l~v~i~~Vdv~~~-----~~dr~~~~~-~~q~~~i~f~g~-hfD~~t 230 (306)
T COG5539 182 IEIAIISDQLPVRIHVVDVDKD-----SEDRYNSHP-YVQRISILFTGI-HFDEET 230 (306)
T ss_pred EEEeEeccccceeeeeeecchh-----HHhhccCCh-hhhhhhhhhccc-ccchhh
Confidence 9999999999999999988744 245677553 346688999987 999876
No 9
>PF05415 Peptidase_C36: Beet necrotic yellow vein furovirus-type papain-like endopeptidase; InterPro: IPR008746 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases correspond to MEROPS peptidase family C36 (clan CA). The type example is beet necrotic yellow vein furovirus-type papain-like endopeptidase (beet necrotic yellow vein virus), which is involved in processing the viral polyprotein.
Probab=93.11 E-value=0.37 Score=40.37 Aligned_cols=95 Identities=19% Similarity=0.290 Sum_probs=57.3
Q ss_pred eCCCCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHhcChhhhhhccccCHHHHHHHhhC--CCCcCCHHH
Q 018971 206 IPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRK--PHVWGGEPE 283 (348)
Q Consensus 206 IpGDGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~~n~e~fe~fie~dfd~Y~~~M~k--~gtWGG~iE 283 (348)
+..|+|||--||+.+|... -+..+.+.+ ++. ...+.|+.++++ |.+|-+
T Consensus 3 ~sR~NNCLVVAis~~L~~T-----------~e~l~~~M~-------An~--------~~i~~y~~W~r~~~~STW~D--- 53 (104)
T PF05415_consen 3 ASRPNNCLVVAISECLGVT-----------LEKLDNLMQ-------ANV--------STIKKYHTWLRKKRPSTWDD--- 53 (104)
T ss_pred ccCCCCeEeehHHHHhcch-----------HHHHHHHHH-------hhH--------HHHHHHHHHHhcCCCCcHHH---
Confidence 5679999999999988621 011122222 121 245778877765 789944
Q ss_pred HHHHHHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEE----cCCCccee
Q 018971 284 LLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLY----HGFGHYDA 335 (348)
Q Consensus 284 L~ALA~ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~LsY----hg~gHYDS 335 (348)
..++|+.+++.|+|--.... + ..+..+++.. ....++| .+.|||-+
T Consensus 54 C~mFA~~LkVsm~vkV~~~~--~-~~l~~~~d~~---~s~v~~~~~~Ke~dGHF~a 103 (104)
T PF05415_consen 54 CRMFADALKVSMQVKVLSDK--P-YDLLYFVDGA---VSVVTLHLEGKESDGHFIA 103 (104)
T ss_pred HHHHHHhheeEEEEEEcCCC--C-ceeeEeecCc---cceehhhhhccccCCceec
Confidence 57899999999988665422 1 2344455433 2334444 27789864
No 10
>PF05381 Peptidase_C21: Tymovirus endopeptidase; InterPro: IPR008043 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 is found in cysteine peptidases belong to the MEROPS peptidase family C21 (tymovirus endopeptidase family, clan CA). The type example is tymovirus endopeptidase (turnip yellow mosaic virus). The noncapsid protein expressed from ORF-206 of turnip yellow mosaic virus (TYMV) is autocatalytically processed by a papain-like protease, producing N-terminal 150kDa and C-terminal 70kDa proteins.; GO: 0003968 RNA-directed RNA polymerase activity, 0016032 viral reproduction
Probab=50.94 E-value=88 Score=26.88 Aligned_cols=90 Identities=18% Similarity=0.259 Sum_probs=56.0
Q ss_pred CCchhhHHHHHhhhhcCCCCCCChHHHHHHHHHHHHHHHHHHhcChhhhhhccccCHHHHHHHhhCCCCcCCHH-HHHHH
Q 018971 209 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLYVSQIRKPHVWGGEP-ELLMA 287 (348)
Q Consensus 209 DGNCLFRAVS~QL~~~~G~~~~~~~lrr~~h~eLR~~vvdy~~~n~e~fe~fie~dfd~Y~~~M~k~gtWGG~i-EL~AL 287 (348)
.-+||--||+.|.... .+++-..|....-|-+..|+|. + +.|=.. .+.||
T Consensus 2 ~~~CLL~A~s~at~~~----------~~~LW~~L~~~lPDSlL~n~ei----------------~---~~GLSTDhltaL 52 (104)
T PF05381_consen 2 ALDCLLVAISQATSIS----------PETLWATLCEILPDSLLDNPEI----------------R---TLGLSTDHLTAL 52 (104)
T ss_pred CcceeHHhhhhhhCCC----------HHHHHHHHHHhCchhhcCchhh----------------h---hcCCcHHHHHHH
Confidence 4589999999987632 1344555555555544444322 1 122222 36789
Q ss_pred HHhcCCCEEEEeecCCCCCceEEEEcCCCCCCCCeEEEEEcC--CCccee
Q 018971 288 SHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHG--FGHYDA 335 (348)
Q Consensus 288 A~ll~~~I~Vy~~d~~s~g~i~I~~~G~e~~~~~pI~LsYhg--~gHYDS 335 (348)
|..|+....|.+.. + ..+||-.+ ....+.|.|.. .|||..
T Consensus 53 a~~~~~~~~~hs~~----~---~~~~Gi~~-as~~~~I~ht~G~p~HFs~ 94 (104)
T PF05381_consen 53 AYRYHFQCTFHSDH----G---VLHYGIKD-ASTVFTITHTPGPPGHFSL 94 (104)
T ss_pred HHHHheEEEEEcCC----c---eEEeecCC-CceEEEEEeCCCCCCcccc
Confidence 99999999999753 2 35788764 34556666652 359998
No 11
>PRK09784 hypothetical protein; Provisional
Probab=33.44 E-value=23 Score=35.09 Aligned_cols=22 Identities=32% Similarity=0.545 Sum_probs=19.4
Q ss_pred cCCcEEEeeCCCCchhhHHHHH
Q 018971 198 YTDYSVIGIPGDGRCLFRAVAH 219 (348)
Q Consensus 198 ~~gL~I~~IpGDGNCLFRAVS~ 219 (348)
..||+-.+|.|||-||.|||--
T Consensus 197 ~~glkyapvdgdgycllrailv 218 (417)
T PRK09784 197 TYGLKYAPVDGDGYCLLRAILV 218 (417)
T ss_pred hhCceecccCCCchhHHHHHHH
Confidence 3689999999999999999864
No 12
>PF05412 Peptidase_C33: Equine arterivirus Nsp2-type cysteine proteinase; InterPro: IPR008743 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases corresponds to MEROPS peptidase family C33 (clan CA). The type example is equine arteritis virus Nsp2-type cysteine proteinase, which is involved in viral polyprotein processing [].; GO: 0016032 viral reproduction, 0019082 viral protein processing
Probab=29.43 E-value=37 Score=29.30 Aligned_cols=16 Identities=38% Similarity=0.725 Sum_probs=14.2
Q ss_pred CCCCchhhHHHHHhhh
Q 018971 207 PGDGRCLFRAVAHGAC 222 (348)
Q Consensus 207 pGDGNCLFRAVS~QL~ 222 (348)
|+||+|-+|.|+.-+.
T Consensus 5 P~DG~CG~H~i~aI~n 20 (108)
T PF05412_consen 5 PGDGSCGWHCIAAIMN 20 (108)
T ss_pred CCCCchHHHHHHHHHH
Confidence 7899999999998665
No 13
>KOG2606 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=27.69 E-value=40 Score=33.82 Aligned_cols=25 Identities=24% Similarity=0.215 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhcChhhhhhccc
Q 018971 238 LADDLRAKVADEFIKRREETEWFIE 262 (348)
Q Consensus 238 ~h~eLR~~vvdy~~~n~e~fe~fie 262 (348)
....||...++||+.|.++|.+|+.
T Consensus 188 ~v~kLR~~~a~Ymr~H~~df~pf~~ 212 (302)
T KOG2606|consen 188 SVQKLREETADYMREHVEDFLPFLL 212 (302)
T ss_pred cHHHHHHHHHHHHHHHHHHhhhHhc
Confidence 3568999999999999999999973
No 14
>KOG2605 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=23.03 E-value=36 Score=34.93 Aligned_cols=43 Identities=33% Similarity=0.391 Sum_probs=39.2
Q ss_pred hhccccCHHHHHHHhhCCCCcCCHHHHHHHHHhcCCCEEEEee
Q 018971 258 EWFIEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMH 300 (348)
Q Consensus 258 e~fie~dfd~Y~~~M~k~gtWGG~iEL~ALA~ll~~~I~Vy~~ 300 (348)
..++.++|+.|+..+.++.+-|+-+||.+++.+++.+.+.+..
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~s~~~r~~~~~~~~ 45 (371)
T KOG2605|consen 3 REEVSGDFDWYLWDLGKTKTLGTILELGAMSHVYRRNVIDYEP 45 (371)
T ss_pred ccccCchHHHHhhcCCCCcccccchhhhhccccccCCCCCcCC
Confidence 4456789999999999999999999999999999999999875
No 15
>PF07418 PCEMA1: Acidic phosphoprotein precursor PCEMA1; InterPro: IPR010882 This family consists of several acidic phosphoprotein precursor PCEMA1 sequences which appear to be found exclusively in Plasmodium chabaudi. PCEMA1 is an antigen that is associated with the membrane of the infected erythrocyte throughout the entire intraerythrocytic cycle []. The exact function of this family is unclear.
Probab=22.66 E-value=53 Score=32.54 Aligned_cols=39 Identities=26% Similarity=0.465 Sum_probs=30.7
Q ss_pred ceEEecccccccccceeeeeeec-----CCCceeeeecccCcccccccc
Q 018971 20 NVVNLGGRFQGQMGGNICGVTYR-----GPSSSCCFYLCSGQSKKNYAG 63 (348)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~ 63 (348)
|||+|+ +..|-||.+|-. --||--||+.|+-+.++.++-
T Consensus 2 k~islg-----lissiifsivlakn~s~s~sttgcF~f~rkK~kk~~~~ 45 (282)
T PF07418_consen 2 KVISLG-----LISSIIFSIVLAKNSSGSGSTTGCFGFCRKKPKKIHKT 45 (282)
T ss_pred ceeeec-----chhhhheeeEEeccCCCCCCccceehhhcccccccccc
Confidence 678886 888999988743 345678999999999988764
Done!