Query 027331
Match_columns 225
No_of_seqs 197 out of 1148
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 08:21:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027331.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027331hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2605 OTU (ovarian tumor)-li 100.0 7.7E-29 1.7E-33 226.2 9.2 188 38-225 171-364 (371)
2 PF02338 OTU: OTU-like cystein 99.9 1.5E-26 3.3E-31 179.6 8.5 107 91-203 1-121 (121)
3 KOG2606 OTU (ovarian tumor)-li 99.9 5E-24 1.1E-28 186.9 11.0 141 68-211 142-300 (302)
4 KOG3288 OTU-like cysteine prot 99.6 3.8E-15 8.3E-20 128.8 6.3 153 42-210 78-234 (307)
5 PF10275 Peptidase_C65: Peptid 99.5 6.7E-14 1.5E-18 121.8 12.7 94 114-208 141-244 (244)
6 KOG3991 Uncharacterized conser 99.4 8.4E-13 1.8E-17 112.8 8.5 93 114-209 158-256 (256)
7 COG5539 Predicted cysteine pro 98.7 4.7E-09 1E-13 92.7 0.9 123 80-206 166-304 (306)
8 COG5539 Predicted cysteine pro 98.5 5.1E-08 1.1E-12 86.2 3.2 110 92-207 119-230 (306)
9 PF05415 Peptidase_C36: Beet n 90.3 0.9 1.9E-05 34.0 5.4 65 90-172 3-69 (104)
10 PF05412 Peptidase_C33: Equine 87.9 0.4 8.7E-06 36.9 2.2 86 90-213 4-90 (108)
11 PF05381 Peptidase_C21: Tymovi 87.8 5 0.00011 30.8 8.1 90 93-205 2-94 (104)
12 PRK09784 hypothetical protein; 76.7 1.4 3.1E-05 39.0 1.6 25 80-104 195-219 (417)
13 PF05379 Peptidase_C23: Carlav 58.7 72 0.0016 23.6 8.8 72 94-186 3-74 (89)
14 COG5007 Predicted transcriptio 54.3 8.5 0.00018 28.1 1.6 54 75-128 5-62 (80)
15 TIGR01078 arcA arginine deimin 45.4 35 0.00075 32.2 4.6 73 61-145 34-106 (405)
16 cd05295 MDH_like Malate dehydr 36.8 30 0.00066 33.2 2.8 43 95-151 3-49 (452)
17 PRK01388 arginine deiminase; P 33.4 70 0.0015 30.2 4.6 31 61-91 41-71 (406)
18 smart00718 DM4_12 DM4/DM12 fam 30.7 1.2E+02 0.0027 22.5 4.7 72 73-156 10-82 (95)
19 PF08715 Viral_protease: Papai 26.9 1.1E+02 0.0025 28.0 4.7 79 71-156 78-168 (320)
20 TIGR02934 nifT_nitrog probable 24.6 6 0.00013 28.0 -3.1 28 130-157 13-41 (67)
21 KOG4345 NF-kappa B regulator A 23.0 1.1E+02 0.0025 31.0 4.2 20 154-173 223-242 (774)
22 KOG4100 Uncharacterized conser 22.6 72 0.0016 25.0 2.2 47 97-153 29-79 (125)
23 PF01381 HTH_3: Helix-turn-hel 21.2 1.2E+02 0.0026 19.1 2.9 29 140-168 24-52 (55)
24 KOG3348 BolA (bacterial stress 21.2 69 0.0015 23.7 1.7 52 73-124 9-64 (85)
25 cd03346 eu_TrpOH Eukaryotic tr 21.1 1.8E+02 0.004 26.3 4.8 92 74-169 110-212 (287)
No 1
>KOG2605 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=7.7e-29 Score=226.22 Aligned_cols=188 Identities=36% Similarity=0.543 Sum_probs=173.0
Q ss_pred hhhHHHHHHhcCCCCCCCCCCCCCCCCCCChhhHHHHHHHHHhhhcCcEEEEeCCCCChhHHHHHHHHhcCchhHHHHHH
Q 027331 38 NLDGAVARRLSNLAPVPHVPKINSYIPNMSDASLDHQRLLQRLNVYGLYEVKVSGDGNCQFRALSDQMYKSPEYHKHVRK 117 (225)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~L~~~L~~~gL~~~~V~GDGNClFrAls~qL~~~~~~h~~lR~ 117 (225)
....++|.+++.+.|+++.|.+++.+|+..++..+|+++.+++..+|+..++|.+||||+|||+++|+|++.+.|.++|+
T Consensus 171 ~~~~~~g~~in~y~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~g~e~~Kv~edGsC~fra~aDQvy~d~e~~~~~~~ 250 (371)
T KOG2605|consen 171 PEAKEVGVRINDYNPKVLVPFINGLPPSEEEPQSAHERSAKRKKHFGFEYKKVVEDGSCLFRALADQVYGDDEQHDHNRR 250 (371)
T ss_pred ccchhhcccccCCCccccccccccCCCchHHHHHHHHHHHHHHHHhhhhhhhcccCCchhhhccHHHhhcCHHHHHHHHH
Confidence 67889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhccccccccccccHHHHHHhhcccCCCCCHHHHHHHHH--HhCCcEEEEecCCCceeEEecCCCCCCCCeEEE
Q 027331 118 EVVKQLKDCRSMYEGYVPMKYKRYYKNMAKVGEWGDHVTLQAAAD--KFAAKICLLTSFRDTCFIEIMPQHQAPKRELWL 195 (225)
Q Consensus 118 ~vv~~l~~n~~~f~~fv~~~~~~Yl~~m~k~g~WGd~ieL~A~A~--~f~v~I~V~~~~~~~~~i~~~p~~~~~~~~I~L 195 (225)
+++++++.+++.|+.|+++++.+|++++++++.||+|+|+||+|. -+..++.++++.+.+++++..|....+...+++
T Consensus 251 ~~~dq~~~e~~~~~~~vt~~~~~y~k~kr~~~~~gnhie~Qa~a~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~ 330 (371)
T KOG2605|consen 251 ECVDQLKKERDFYEDYVTEDFTSYIKRKRADGEPGNHIEQQAAADIYEEIEKPLNITSFKDTCYIQTPPAIEESVKMEKY 330 (371)
T ss_pred HHHHHHhhcccccccccccchhhcccccccCCCCcchHHHhhhhhhhhhccccceeecccccceeccCcccccchhhhhh
Confidence 999999999999999999999999999999999999999999998 778888888888889999988877667777999
Q ss_pred EecCCCcceeeecC--CCCC--CCCCccccccCC
Q 027331 196 SFWSEVHYNSLYDI--RDAP--VPKKPRKKHWLF 225 (225)
Q Consensus 196 ~~~~~~HY~sl~~~--~d~p--~~~~~~~~~~~~ 225 (225)
.||...||+.++.. ...+ ...++|+|+|.+
T Consensus 331 n~~~~~h~~~~~~~~~~~~s~~~~~~~~r~~~~~ 364 (371)
T KOG2605|consen 331 NFWVEVHYNTARHSGKSADSATLEEKTKRKSLRR 364 (371)
T ss_pred cccchhhhhhcccccccccccchhhccCCCchhh
Confidence 99999999999984 4443 445678888864
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=99.93 E-value=1.5e-26 Score=179.60 Aligned_cols=107 Identities=35% Similarity=0.618 Sum_probs=91.4
Q ss_pred CCCCChhHHHHHHHHh----cCchhHHHHHHHHHHHHh-hccccccccccccHHHHHHhhcccCCCCCHHHHHHHHHHhC
Q 027331 91 SGDGNCQFRALSDQMY----KSPEYHKHVRKEVVKQLK-DCRSMYEGYVPMKYKRYYKNMAKVGEWGDHVTLQAAADKFA 165 (225)
Q Consensus 91 ~GDGNClFrAls~qL~----~~~~~h~~lR~~vv~~l~-~n~~~f~~fv~~~~~~Yl~~m~k~g~WGd~ieL~A~A~~f~ 165 (225)
||||||||||||+||+ ++++.|.+||+.|++||+ .|++.|.+|+..+ +|+++|+||+++||+|+|++|+
T Consensus 1 pgDGnClF~Avs~~l~~~~~~~~~~~~~lR~~~~~~l~~~~~~~~~~~~~~~------~~~~~~~Wg~~~el~a~a~~~~ 74 (121)
T PF02338_consen 1 PGDGNCLFRAVSDQLYGDGGGSEDNHQELRKAVVDYLRDKNRDKFEEFLEGD------KMSKPGTWGGEIELQALANVLN 74 (121)
T ss_dssp -SSTTHHHHHHHHHHCTT-SSSTTTHHHHHHHHHHHHHTHTTTHHHHHHHHH------HHTSTTSHEEHHHHHHHHHHHT
T ss_pred CCCccHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhccchhhhhhhhh------hhccccccCcHHHHHHHHHHhC
Confidence 7999999999999999 999999999999999999 9999999998655 8999999999999999999999
Q ss_pred CcEEEEecCCCc--eeEEecCC--CCCCCCeEEEEecC-----CCcc
Q 027331 166 AKICLLTSFRDT--CFIEIMPQ--HQAPKRELWLSFWS-----EVHY 203 (225)
Q Consensus 166 v~I~V~~~~~~~--~~i~~~p~--~~~~~~~I~L~~~~-----~~HY 203 (225)
++|+|++..... .++.+.+. .....++|+|+|.. ++||
T Consensus 75 ~~I~v~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~~~~~l~~~~~Hy 121 (121)
T PF02338_consen 75 RPIIVYSSSDGDNVVFIKFTGKYPPLESPPPICLCYHGHLYYTGNHY 121 (121)
T ss_dssp SEEEEECETTTBEEEEEEESCEESTTTTTTSEEEEEETEEEEETTEE
T ss_pred CeEEEEEcCCCCccceeeecCccccCCCCCeEEEEEcCCccCCCCCC
Confidence 999999875433 33344331 13457899999988 8998
No 3
>KOG2606 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=5e-24 Score=186.91 Aligned_cols=141 Identities=19% Similarity=0.380 Sum_probs=122.2
Q ss_pred hhhHHHHHHHHHhhhcCcEEEEeCCCCChhHHHHHHHHhcCc---hhHHHHHHHHHHHHhhcccccccccc---------
Q 027331 68 DASLDHQRLLQRLNVYGLYEVKVSGDGNCQFRALSDQMYKSP---EYHKHVRKEVVKQLKDCRSMYEGYVP--------- 135 (225)
Q Consensus 68 ~~~~~~~~L~~~L~~~gL~~~~V~GDGNClFrAls~qL~~~~---~~h~~lR~~vv~~l~~n~~~f~~fv~--------- 135 (225)
...++.+.|.+.|...||..++||.||+|+|+||++||.... -....||..+.+||+.|.++|.+|+.
T Consensus 142 ~k~~E~~k~~~il~~~~l~~~~Ip~DG~ClY~aI~hQL~~~~~~~~~v~kLR~~~a~Ymr~H~~df~pf~~~eet~d~~~ 221 (302)
T KOG2606|consen 142 AKSMEKEKLAQILEERGLKMFDIPADGHCLYAAISHQLKLRSGKLLSVQKLREETADYMREHVEDFLPFLLDEETGDSLG 221 (302)
T ss_pred hhhhHHHHHHHHHHhccCccccCCCCchhhHHHHHHHHHhccCCCCcHHHHHHHHHHHHHHHHHHhhhHhcCccccccCC
Confidence 335677899999999999999999999999999999986542 45799999999999999999999863
Q ss_pred -ccHHHHHHhhcccCCCCCHHHHHHHHHHhCCcEEEEecCCCceeEEecCCCCCCCCeEEEEecC-----CCcceeeecC
Q 027331 136 -MKYKRYYKNMAKVGEWGDHVTLQAAADKFAAKICLLTSFRDTCFIEIMPQHQAPKRELWLSFWS-----EVHYNSLYDI 209 (225)
Q Consensus 136 -~~~~~Yl~~m~k~g~WGd~ieL~A~A~~f~v~I~V~~~~~~~~~i~~~p~~~~~~~~I~L~~~~-----~~HY~sl~~~ 209 (225)
.+|+.||+.++.++.|||++||.|+|.+|++||.||..++ +.+.|.+...+ .++|.|+|+. +.|||++.+.
T Consensus 222 ~~~f~~Yc~eI~~t~~WGgelEL~AlShvL~~PI~Vy~~~~--p~~~~geey~k-d~pL~lvY~rH~y~LGeHYNS~~~~ 298 (302)
T KOG2606|consen 222 PEDFDKYCREIRNTAAWGGELELKALSHVLQVPIEVYQADG--PILEYGEEYGK-DKPLILVYHRHAYGLGEHYNSVTPL 298 (302)
T ss_pred HHHHHHHHHHhhhhccccchHHHHHHHHhhccCeEEeecCC--CceeechhhCC-CCCeeeehHHhHHHHHhhhcccccc
Confidence 3699999999999999999999999999999999999864 45677766554 6889999876 4999999876
Q ss_pred CC
Q 027331 210 RD 211 (225)
Q Consensus 210 ~d 211 (225)
..
T Consensus 299 ~n 300 (302)
T KOG2606|consen 299 KN 300 (302)
T ss_pred cc
Confidence 53
No 4
>KOG3288 consensus OTU-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=3.8e-15 Score=128.77 Aligned_cols=153 Identities=18% Similarity=0.329 Sum_probs=113.8
Q ss_pred HHHHHhcCCCCCCCCCCCCCC--CCCCChhhHHHHHHHHHhhhcCcEEEEeCCCCChhHHHHHHHHhcCchh-HHHHHHH
Q 027331 42 AVARRLSNLAPVPHVPKINSY--IPNMSDASLDHQRLLQRLNVYGLYEVKVSGDGNCQFRALSDQMYKSPEY-HKHVRKE 118 (225)
Q Consensus 42 ~~~~~~~~~~~~~~~~~~~~~--~p~~~~~~~~~~~L~~~L~~~gL~~~~V~GDGNClFrAls~qL~~~~~~-h~~lR~~ 118 (225)
++.|||-.- |-++..|.+.. .|.....+ --|.++.||.|..|||+|++..+.+.-.. -.++|+.
T Consensus 78 A~tkrl~pg-Pa~s~q~~~~ste~~~~g~~~------------gvl~~~vvp~DNSCLF~ai~yv~~k~~~~~~~elR~i 144 (307)
T KOG3288|consen 78 AATKRLPPG-PAPSYQRVLKSTEMSIGGSGE------------GVLSRRVVPDDNSCLFTAIAYVIFKQVSNRPYELREI 144 (307)
T ss_pred HhhccCCCC-CCcCcccccCCCCCCCCCCcc------------ceeEEEeccCCcchhhhhhhhhhcCccCCCcHHHHHH
Confidence 567777653 55555555433 22222211 13566788999999999999998875432 2699999
Q ss_pred HHHHHhhcccccccc-ccccHHHHHHhhcccCCCCCHHHHHHHHHHhCCcEEEEecCCCceeEEecCCCCCCCCeEEEEe
Q 027331 119 VVKQLKDCRSMYEGY-VPMKYKRYYKNMAKVGEWGDHVTLQAAADKFAAKICLLTSFRDTCFIEIMPQHQAPKRELWLSF 197 (225)
Q Consensus 119 vv~~l~~n~~~f~~f-v~~~~~~Yl~~m~k~g~WGd~ieL~A~A~~f~v~I~V~~~~~~~~~i~~~p~~~~~~~~I~L~~ 197 (225)
+.+...+||+.|... ++..-.+||..+.++..|||.+||..+|+.|++.|+|++.+. .-+.-+..+......+.|.|
T Consensus 145 iA~~Vasnp~~yn~AiLgK~n~eYc~WI~k~dsWGGaIElsILS~~ygveI~vvDiqt--~rid~fged~~~~~rv~lly 222 (307)
T KOG3288|consen 145 IAQEVASNPDKYNDAILGKPNKEYCAWILKMDSWGGAIELSILSDYYGVEICVVDIQT--VRIDRFGEDKNFDNRVLLLY 222 (307)
T ss_pred HHHHHhcChhhhhHHHhCCCcHHHHHHHccccccCceEEeeeehhhhceeEEEEecce--eeehhcCCCCCCCceEEEEe
Confidence 999999999999764 566778999999999999999999999999999999999753 23333333333455677888
Q ss_pred cCCCcceeeecCC
Q 027331 198 WSEVHYNSLYDIR 210 (225)
Q Consensus 198 ~~~~HY~sl~~~~ 210 (225)
++-|||+|....
T Consensus 223 -dGIHYD~l~m~~ 234 (307)
T KOG3288|consen 223 -DGIHYDPLAMNE 234 (307)
T ss_pred -cccccChhhhcc
Confidence 799999998665
No 5
>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=99.55 E-value=6.7e-14 Score=121.83 Aligned_cols=94 Identities=21% Similarity=0.324 Sum_probs=68.3
Q ss_pred HHHHHHHHHHhhcccccccccc----ccHHHHHH-hhcccCCCCCHHHHHHHHHHhCCcEEEEecCCC-----ceeEEec
Q 027331 114 HVRKEVVKQLKDCRSMYEGYVP----MKYKRYYK-NMAKVGEWGDHVTLQAAADKFAAKICLLTSFRD-----TCFIEIM 183 (225)
Q Consensus 114 ~lR~~vv~~l~~n~~~f~~fv~----~~~~~Yl~-~m~k~g~WGd~ieL~A~A~~f~v~I~V~~~~~~-----~~~i~~~ 183 (225)
.+|-.+..||+.|++.|++|++ ..+++||. .+...+.-+||+.+.|+|+.++++|.|+.-+++ .....+.
T Consensus 141 flRLlts~~l~~~~d~y~~fi~~~~~~tve~~C~~~Vep~~~Ead~v~i~ALa~aL~v~i~v~yld~~~~~~~~~~~~~~ 220 (244)
T PF10275_consen 141 FLRLLTSAYLKSNSDEYEPFIDGLEYLTVEEFCSQEVEPMGKEADHVQIIALAQALGVPIRVEYLDRSVEGDEVNRHEFP 220 (244)
T ss_dssp HHHHHHHHHHHHTHHHHGGGSSTT--S-HHHHHHHHTSSTT--B-HHHHHHHHHHHT--EEEEESSSSGCSTTSEEEEES
T ss_pred HHHHHHHHHHHhhHHHHhhhhcccccCCHHHHHHhhcccccccchhHHHHHHHHHhCCeEEEEEecCCCCCCccccccCC
Confidence 4555677889999999999997 67999997 467778889999999999999999999987653 1333443
Q ss_pred CCCCCCCCeEEEEecCCCcceeeec
Q 027331 184 PQHQAPKRELWLSFWSEVHYNSLYD 208 (225)
Q Consensus 184 p~~~~~~~~I~L~~~~~~HY~sl~~ 208 (225)
|......+.|+|.| ..+|||.++|
T Consensus 221 ~~~~~~~~~i~LLy-rpgHYdIly~ 244 (244)
T PF10275_consen 221 PDNESQEPQITLLY-RPGHYDILYP 244 (244)
T ss_dssp -SSTTSS-SEEEEE-ETBEEEEEEE
T ss_pred CccCCCCCEEEEEE-cCCccccccC
Confidence 33334578899999 6779999986
No 6
>KOG3991 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.40 E-value=8.4e-13 Score=112.75 Aligned_cols=93 Identities=19% Similarity=0.314 Sum_probs=73.4
Q ss_pred HHHHHHHHHHhhcccccccccc--ccHHHHHHh-hcccCCCCCHHHHHHHHHHhCCcEEEEecCCCce---eEEecCCCC
Q 027331 114 HVRKEVVKQLKDCRSMYEGYVP--MKYKRYYKN-MAKVGEWGDHVTLQAAADKFAAKICLLTSFRDTC---FIEIMPQHQ 187 (225)
Q Consensus 114 ~lR~~vv~~l~~n~~~f~~fv~--~~~~~Yl~~-m~k~g~WGd~ieL~A~A~~f~v~I~V~~~~~~~~---~i~~~p~~~ 187 (225)
.+|-.+..+|++|++.|++|++ ++.++||+. ....+.=.||++|.|+|+.+++.|.|...++..+ ....+|.
T Consensus 158 ylRLvtS~~ik~~adfy~pFI~e~~tV~~fC~~eVEPm~kesdhi~I~ALs~Al~i~irVey~dr~~~~~~~hH~fpe-- 235 (256)
T KOG3991|consen 158 YLRLVTSGFIKSNADFYQPFIDEGMTVKAFCTQEVEPMYKESDHIHITALSQALGIRIRVEYVDRGSGDTVNHHDFPE-- 235 (256)
T ss_pred HHHHHHHHHHhhChhhhhccCCCCCcHHHHHHhhcchhhhccCceeHHHHHhhhCceEEEEEecCCCCCCCCCCcCcc--
Confidence 4566677889999999999997 689999995 4555666899999999999999999998765322 1223342
Q ss_pred CCCCeEEEEecCCCcceeeecC
Q 027331 188 APKRELWLSFWSEVHYNSLYDI 209 (225)
Q Consensus 188 ~~~~~I~L~~~~~~HY~sl~~~ 209 (225)
.+.+.|+|.| ..+|||.||+.
T Consensus 236 ~s~P~I~LLY-rpGHYdilY~~ 256 (256)
T KOG3991|consen 236 ASAPEIYLLY-RPGHYDILYKK 256 (256)
T ss_pred ccCceEEEEe-cCCccccccCC
Confidence 3578899999 78899999974
No 7
>COG5539 Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=4.7e-09 Score=92.66 Aligned_cols=123 Identities=13% Similarity=0.063 Sum_probs=89.8
Q ss_pred hhhcCcEEEEeCCCCChhHHHHHHHHhcC-----chhHHHHHHHHHHHHhhcccccccccc-------ccHHHHHHhhcc
Q 027331 80 LNVYGLYEVKVSGDGNCQFRALSDQMYKS-----PEYHKHVRKEVVKQLKDCRSMYEGYVP-------MKYKRYYKNMAK 147 (225)
Q Consensus 80 L~~~gL~~~~V~GDGNClFrAls~qL~~~-----~~~h~~lR~~vv~~l~~n~~~f~~fv~-------~~~~~Yl~~m~k 147 (225)
+...+++-..+.|||+|.|-+||+||.-. -+.-...|-.-..|...+...|.++.- -.|++|++.|..
T Consensus 166 ~y~~~i~k~d~~~dG~ieia~iS~~l~v~i~~Vdv~~~~~dr~~~~~~~q~~~i~f~g~hfD~~t~~m~~~dt~~ne~~~ 245 (306)
T COG5539 166 AYATWIVKPDSQGDGCIEIAIISDQLPVRIHVVDVDKDSEDRYNSHPYVQRISILFTGIHFDEETLAMVLWDTYVNEVLF 245 (306)
T ss_pred HHHHhhhccccCCCceEEEeEeccccceeeeeeecchhHHhhccCChhhhhhhhhhcccccchhhhhcchHHHHHhhhcc
Confidence 33446666788999999999999998642 122355555555666666777776641 379999999999
Q ss_pred cCCCCCHHHHHHHHHHhCCcEEEEecCCCceeEEecCCCCCCCCeEEEEec----CCCcceee
Q 027331 148 VGEWGDHVTLQAAADKFAAKICLLTSFRDTCFIEIMPQHQAPKRELWLSFW----SEVHYNSL 206 (225)
Q Consensus 148 ~g~WGd~ieL~A~A~~f~v~I~V~~~~~~~~~i~~~p~~~~~~~~I~L~~~----~~~HY~sl 206 (225)
+..||..++++++|..|++|+.++...+ +.+.+.+.+.+ .+..+.|. +-+||+++
T Consensus 246 ~a~~g~~~ei~qLas~lk~~~~~~nT~~--~~ik~n~c~~~--~~~e~~~~~Ha~a~GH~n~~ 304 (306)
T COG5539 246 DASDGITIEIQQLASLLKNPHYYTNTAS--PSIKCNICGTG--FVGEKDYYAHALATGHYNFG 304 (306)
T ss_pred cccccchHHHHHHHHHhcCceEEeecCC--ceEEeeccccc--cchhhHHHHHHHhhcCcccc
Confidence 9999999999999999999999998754 56777665442 23333332 22699986
No 8
>COG5539 Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=5.1e-08 Score=86.20 Aligned_cols=110 Identities=13% Similarity=0.195 Sum_probs=89.9
Q ss_pred CCCChhHHHHHHHHhcCchhHHHHHHHHHHHHhhcccccccccc-ccHHHHHHhhcccCCCC-CHHHHHHHHHHhCCcEE
Q 027331 92 GDGNCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVP-MKYKRYYKNMAKVGEWG-DHVTLQAAADKFAAKIC 169 (225)
Q Consensus 92 GDGNClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~-~~~~~Yl~~m~k~g~WG-d~ieL~A~A~~f~v~I~ 169 (225)
.|..|+|+|.+..++.. .-..+|..+.....+||+.|.+.+. -+.-.|+.++.+...|| |++++.++++.|++.|+
T Consensus 119 ~d~srl~q~~~~~l~~a--sv~~lrE~vs~Ev~snPDl~n~~i~~~~~i~y~~~i~k~d~~~dG~ieia~iS~~l~v~i~ 196 (306)
T COG5539 119 DDNSRLFQAERYSLRDA--SVAKLREVVSLEVLSNPDLYNPAILEIDVIAYATWIVKPDSQGDGCIEIAIISDQLPVRIH 196 (306)
T ss_pred CchHHHHHHHHhhhhhh--hHHHHHHHHHHHHhhCccccchhhcCcchHHHHHhhhccccCCCceEEEeEeccccceeee
Confidence 46789999999998762 3489999999999999999999875 58889999999999999 99999999999999999
Q ss_pred EEecCCCceeEEecCCCCCCCCeEEEEecCCCcceeee
Q 027331 170 LLTSFRDTCFIEIMPQHQAPKRELWLSFWSEVHYNSLY 207 (225)
Q Consensus 170 V~~~~~~~~~i~~~p~~~~~~~~I~L~~~~~~HY~sl~ 207 (225)
|+....+. -..+.+... .-.|.+.| .+.|||...
T Consensus 197 ~Vdv~~~~-~dr~~~~~~--~q~~~i~f-~g~hfD~~t 230 (306)
T COG5539 197 VVDVDKDS-EDRYNSHPY--VQRISILF-TGIHFDEET 230 (306)
T ss_pred eeecchhH-HhhccCChh--hhhhhhhh-cccccchhh
Confidence 99976432 123333322 23467778 788999887
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=90.25 E-value=0.9 Score=34.05 Aligned_cols=65 Identities=18% Similarity=0.283 Sum_probs=42.7
Q ss_pred eCCCCChhHHHHHHHHhcCchhHHHHHHHHHHHHhhccccccccccccHHHHHHhh--cccCCCCCHHHHHHHHHHhCCc
Q 027331 90 VSGDGNCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVPMKYKRYYKNM--AKVGEWGDHVTLQAAADKFAAK 167 (225)
Q Consensus 90 V~GDGNClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~~~~~~Yl~~m--~k~g~WGd~ieL~A~A~~f~v~ 167 (225)
+..|.||+.-|+|..|+-+-+ .|... |..+. ...+.|+..+ +++.+|-|- ..+|+.+++.
T Consensus 3 ~sR~NNCLVVAis~~L~~T~e---~l~~~----M~An~--------~~i~~y~~W~r~~~~STW~DC---~mFA~~LkVs 64 (104)
T PF05415_consen 3 ASRPNNCLVVAISECLGVTLE---KLDNL----MQANV--------STIKKYHTWLRKKRPSTWDDC---RMFADALKVS 64 (104)
T ss_pred ccCCCCeEeehHHHHhcchHH---HHHHH----HHhhH--------HHHHHHHHHHhcCCCCcHHHH---HHHHHhheeE
Confidence 457899999999999988763 22222 22111 2355666644 457888753 3578999998
Q ss_pred EEEEe
Q 027331 168 ICLLT 172 (225)
Q Consensus 168 I~V~~ 172 (225)
|.|--
T Consensus 65 m~vkV 69 (104)
T PF05415_consen 65 MQVKV 69 (104)
T ss_pred EEEEE
Confidence 88754
No 10
>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=87.88 E-value=0.4 Score=36.88 Aligned_cols=86 Identities=15% Similarity=0.258 Sum_probs=49.5
Q ss_pred eCCCCChhHHHHHHHHhcCchhHHHHHHHHHHHHhhccccccccccccHH-HHHHhhcccCCCCCHHHHHHHHHHhCCcE
Q 027331 90 VSGDGNCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVPMKYK-RYYKNMAKVGEWGDHVTLQAAADKFAAKI 168 (225)
Q Consensus 90 V~GDGNClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~~~~~-~Yl~~m~k~g~WGd~ieL~A~A~~f~v~I 168 (225)
-|+||+|.+|+|+..+++ | ++.+|. .|-+..+....|.++.-|.-+-..++.|+
T Consensus 4 PP~DG~CG~H~i~aI~n~---------------m----------~~~~~t~~l~~~~r~~d~W~~dedl~~~iq~l~lPa 58 (108)
T PF05412_consen 4 PPGDGSCGWHCIAAIMNH---------------M----------MGGEFTTPLPQRNRPSDDWADDEDLYQVIQSLRLPA 58 (108)
T ss_pred CCCCCchHHHHHHHHHHH---------------h----------hccCCCccccccCCChHHccChHHHHHHHHHccCce
Confidence 489999999999976653 1 111111 11223356778999888776666667665
Q ss_pred EEEecCCCceeEEecCCCCCCCCeEEEEecCCCcceeeecCCCCC
Q 027331 169 CLLTSFRDTCFIEIMPQHQAPKRELWLSFWSEVHYNSLYDIRDAP 213 (225)
Q Consensus 169 ~V~~~~~~~~~i~~~p~~~~~~~~I~L~~~~~~HY~sl~~~~d~p 213 (225)
-+.-. ..-....|+.-..+.|+..-+..+-.|
T Consensus 59 t~~~~-------------~~Cp~ArYv~~l~~qHW~V~~~~g~~~ 90 (108)
T PF05412_consen 59 TLDRN-------------GACPHARYVLKLDGQHWEVSVRKGRAP 90 (108)
T ss_pred eccCC-------------CCCCCCEEEEEecCceEEEEEcCCCCc
Confidence 54321 111123344444678888776666333
No 11
>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=87.82 E-value=5 Score=30.85 Aligned_cols=90 Identities=14% Similarity=0.161 Sum_probs=58.0
Q ss_pred CCChhHHHHHHHHhcCch-hHHHHHHHHHHHHhhccccccccccccHHHHHHhhcccCCCCCHHHHHHHHHHhCCcEEEE
Q 027331 93 DGNCQFRALSDQMYKSPE-YHKHVRKEVVKQLKDCRSMYEGYVPMKYKRYYKNMAKVGEWGDHVTLQAAADKFAAKICLL 171 (225)
Q Consensus 93 DGNClFrAls~qL~~~~~-~h~~lR~~vv~~l~~n~~~f~~fv~~~~~~Yl~~m~k~g~WGd~ieL~A~A~~f~v~I~V~ 171 (225)
.-||+.-|+|.|..-.++ -|..|...+=|=+.+|++ +++-|- .--.+.|+|..|+.+..|+
T Consensus 2 ~~~CLL~A~s~at~~~~~~LW~~L~~~lPDSlL~n~e----------------i~~~GL--STDhltaLa~~~~~~~~~h 63 (104)
T PF05381_consen 2 ALDCLLVAISQATSISPETLWATLCEILPDSLLDNPE----------------IRTLGL--STDHLTALAYRYHFQCTFH 63 (104)
T ss_pred CcceeHHhhhhhhCCCHHHHHHHHHHhCchhhcCchh----------------hhhcCC--cHHHHHHHHHHHheEEEEE
Confidence 358999999999987762 344444433333333222 133332 2345678999999999999
Q ss_pred ecCCCceeEEecCCCCCCCCeEEEEecCC--Cccee
Q 027331 172 TSFRDTCFIEIMPQHQAPKRELWLSFWSE--VHYNS 205 (225)
Q Consensus 172 ~~~~~~~~i~~~p~~~~~~~~I~L~~~~~--~HY~s 205 (225)
+..+ .+.|...+ ....+.|.|..+ .||..
T Consensus 64 s~~~---~~~~Gi~~--as~~~~I~ht~G~p~HFs~ 94 (104)
T PF05381_consen 64 SDHG---VLHYGIKD--ASTVFTITHTPGPPGHFSL 94 (104)
T ss_pred cCCc---eEEeecCC--CceEEEEEeCCCCCCcccc
Confidence 8754 46676643 356788877554 79998
No 12
>PRK09784 hypothetical protein; Provisional
Probab=76.73 E-value=1.4 Score=39.04 Aligned_cols=25 Identities=40% Similarity=0.620 Sum_probs=21.8
Q ss_pred hhhcCcEEEEeCCCCChhHHHHHHH
Q 027331 80 LNVYGLYEVKVSGDGNCQFRALSDQ 104 (225)
Q Consensus 80 L~~~gL~~~~V~GDGNClFrAls~q 104 (225)
=+.|||+--+|.|||-|+.||+-..
T Consensus 195 n~~~glkyapvdgdgycllrailvl 219 (417)
T PRK09784 195 NKTYGLKYAPVDGDGYCLLRAILVL 219 (417)
T ss_pred hhhhCceecccCCCchhHHHHHHHh
Confidence 4679999999999999999998643
No 13
>PF05379 Peptidase_C23: Carlavirus endopeptidase ; InterPro: IPR008041 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C23 (clan CA). The type example is Carlavirus (apple stem pitting virus) endopeptidase, this thought to play a role in the post-translational cleavage of the high molecular weight primary translation products of the virus.; GO: 0003968 RNA-directed RNA polymerase activity, 0016817 hydrolase activity, acting on acid anhydrides
Probab=58.74 E-value=72 Score=23.60 Aligned_cols=72 Identities=13% Similarity=0.115 Sum_probs=43.0
Q ss_pred CChhHHHHHHHHhcCchhHHHHHHHHHHHHhhccccccccccccHHHHHHhhcccCCCCCHHHHHHHHHHhCCcEEEEec
Q 027331 94 GNCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVPMKYKRYYKNMAKVGEWGDHVTLQAAADKFAAKICLLTS 173 (225)
Q Consensus 94 GNClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~~~~~~Yl~~m~k~g~WGd~ieL~A~A~~f~v~I~V~~~ 173 (225)
..|..+|+|.+|.+.+ .+|=+.+-+-+ -.+.++.+ ..|.=.+-..+..+.+.|++.-.|...
T Consensus 3 N~Cvi~AiA~aL~R~~---~dVl~Vl~~~~--------------~~~~~~~l-~~G~Gl~l~~le~~f~~F~I~A~v~~~ 64 (89)
T PF05379_consen 3 NGCVIRAIAEALGRRE---QDVLAVLSRKC--------------GEELLEEL-WSGEGLDLEDLEELFELFDICAHVNFG 64 (89)
T ss_pred ccchhHHHHHHhCCCH---HHHHHHHHhcc--------------CHHHHHHH-HcCCCcCHHHHHHHHHHcCeEEEEEEC
Confidence 4699999999999987 33222222111 12223333 234424555677889999999888875
Q ss_pred CCCceeEEecCCC
Q 027331 174 FRDTCFIEIMPQH 186 (225)
Q Consensus 174 ~~~~~~i~~~p~~ 186 (225)
.. .+.+.+.+
T Consensus 65 g~---~~~lN~~G 74 (89)
T PF05379_consen 65 GE---TFVLNEEG 74 (89)
T ss_pred CE---EEEECCCC
Confidence 43 45565543
No 14
>COG5007 Predicted transcriptional regulator, BolA superfamily [Transcription]
Probab=54.29 E-value=8.5 Score=28.12 Aligned_cols=54 Identities=24% Similarity=0.274 Sum_probs=35.9
Q ss_pred HHHHHh-hhcCcEEEEeCCCCChhH-HHHHHHHhcCc--hhHHHHHHHHHHHHhhccc
Q 027331 75 RLLQRL-NVYGLYEVKVSGDGNCQF-RALSDQMYKSP--EYHKHVRKEVVKQLKDCRS 128 (225)
Q Consensus 75 ~L~~~L-~~~gL~~~~V~GDGNClF-rAls~qL~~~~--~~h~~lR~~vv~~l~~n~~ 128 (225)
.+.+.| ..+.+...+|.|||+=|| -+|++.+-|-. ..|+.|-.-+.+||.++.-
T Consensus 5 ~Ik~ll~~~L~~e~v~V~Gdg~Hf~vi~Vs~~F~g~srvkrqq~vYApL~~~i~~~~I 62 (80)
T COG5007 5 EIKSLLENALPLEEVEVEGDGSHFQVIAVSEEFAGKSRVKRQQLVYAPLMAYIADNEI 62 (80)
T ss_pred HHHHHHHhcCCccEEEEecCCceEEEEEehHhhcCccHHHHHHHHHHHHHHHhhcCce
Confidence 334444 456788899999998765 45677665532 3567777778888876543
No 15
>TIGR01078 arcA arginine deiminase. Arginine deiminase is the first enzyme of the arginine deiminase pathway of arginine degradation.
Probab=45.41 E-value=35 Score=32.19 Aligned_cols=73 Identities=14% Similarity=0.269 Sum_probs=47.3
Q ss_pred CCCCCCChhhHHHHHHHHHhhhcCcEEEEeCCCCChhHHHHHHHHhcCchhHHHHHHHHHHHHhhccccccccccccHHH
Q 027331 61 SYIPNMSDASLDHQRLLQRLNVYGLYEVKVSGDGNCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVPMKYKR 140 (225)
Q Consensus 61 ~~~p~~~~~~~~~~~L~~~L~~~gL~~~~V~GDGNClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~~~~~~ 140 (225)
..+|..+.+..+|+.+.+.|+..|..+..+.. -++..+. +.++|+.+++........+..-......+
T Consensus 34 d~i~~~~~a~~EHd~f~~~Lr~~GveV~~l~d-------ll~e~l~-----~~~~r~~~l~~~~~~~~~~~~~~~~~~~~ 101 (405)
T TIGR01078 34 DDIPWVEDAQKEHDQFANTLRDNGIEVLYLED-------LLAETLD-----LPEAKEKFIDEFLSESEILGLGLKVELRD 101 (405)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHCCCEEEEhHH-------HHHHHhC-----CHHHHHHHHHHHHhhccCCCHHHHHHHHH
Confidence 36888889999999999999999999988631 2333331 24778777777655444322222244555
Q ss_pred HHHhh
Q 027331 141 YYKNM 145 (225)
Q Consensus 141 Yl~~m 145 (225)
|+..|
T Consensus 102 ~l~~~ 106 (405)
T TIGR01078 102 YLKSL 106 (405)
T ss_pred HHHhC
Confidence 55554
No 16
>cd05295 MDH_like Malate dehydrogenase-like. These MDH-like proteins are related to other groups in the MDH family but do not have conserved substrate and cofactor binding residues. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subgroup are uncharacterized MDH-like proteins from animals. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=36.79 E-value=30 Score=33.19 Aligned_cols=43 Identities=14% Similarity=0.415 Sum_probs=29.3
Q ss_pred ChhHHHHHHHHhcCchhHHHHHHHHHHHHhhcccccccc----ccccHHHHHHhhcccCCC
Q 027331 95 NCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGY----VPMKYKRYYKNMAKVGEW 151 (225)
Q Consensus 95 NClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~f----v~~~~~~Yl~~m~k~g~W 151 (225)
||-|+|-+. .+.|||..|..+|.-. -|..|++|++.+-+...|
T Consensus 3 ~cp~ya~~e--------------llad~l~~~l~~f~~~ki~~~p~~w~~wl~~~c~~~~w 49 (452)
T cd05295 3 DCPYYAKAE--------------LLADYLQKNLPDFRVHKIVKHPDEWEDWLQDLCKKNGW 49 (452)
T ss_pred CCchhHHHH--------------HHHHHHHhhCCCceEEEccCChHHHHHHHHHHHHhcCC
Confidence 788888766 4566787777776533 257888888877555444
No 17
>PRK01388 arginine deiminase; Provisional
Probab=33.38 E-value=70 Score=30.22 Aligned_cols=31 Identities=19% Similarity=0.262 Sum_probs=27.5
Q ss_pred CCCCCCChhhHHHHHHHHHhhhcCcEEEEeC
Q 027331 61 SYIPNMSDASLDHQRLLQRLNVYGLYEVKVS 91 (225)
Q Consensus 61 ~~~p~~~~~~~~~~~L~~~L~~~gL~~~~V~ 91 (225)
..+|..+.+..+|..+.+.|+..|..+..+.
T Consensus 41 ddi~~l~~aq~EHd~f~~~Lr~~GveV~~l~ 71 (406)
T PRK01388 41 DDVPWVERAQKEHDAFAQTLRDRGVEVLYLE 71 (406)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHCCCEEEEhH
Confidence 3688888999999999999999999998873
No 18
>smart00718 DM4_12 DM4/DM12 family of domains in Drosophila melanogaster proteins of unknown function.
Probab=30.68 E-value=1.2e+02 Score=22.47 Aligned_cols=72 Identities=18% Similarity=0.302 Sum_probs=42.9
Q ss_pred HHHHHHHhhhcCcEEEEeCCCC-ChhHHHHHHHHhcCchhHHHHHHHHHHHHhhccccccccccccHHHHHHhhcccCCC
Q 027331 73 HQRLLQRLNVYGLYEVKVSGDG-NCQFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVPMKYKRYYKNMAKVGEW 151 (225)
Q Consensus 73 ~~~L~~~L~~~gL~~~~V~GDG-NClFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~~~~~~Yl~~m~k~g~W 151 (225)
.+.|.+.|..+|+ || .|+.|||-..--. ...|.-|=..+++.+.+-++.- ...--.+|.+.+ +.|.-
T Consensus 10 Y~~lE~~l~~~G~-------~g~~ClLR~ICE~a~~-~~~~~Gll~ell~ilftps~~~---~~~~~~~Y~~A~-~~G~~ 77 (95)
T smart00718 10 YEALENLLDQLGF-------NGRACLLRAICESAQK-LDDHRGLLGELLRIVLTPPDEL---EEVLDPDYREAY-RAGRA 77 (95)
T ss_pred HHHHHHHHHHcCC-------CchhhHHHHHHHcccc-cccccchHHHHHHHhhcCCcch---hhhchHHHHHHH-HcCCC
Confidence 4677888888996 77 8999999986443 3344446666777774333110 011234555543 45655
Q ss_pred CCHHH
Q 027331 152 GDHVT 156 (225)
Q Consensus 152 Gd~ie 156 (225)
|++..
T Consensus 78 g~dC~ 82 (95)
T smart00718 78 GGDCD 82 (95)
T ss_pred CCCHH
Confidence 66643
No 19
>PF08715 Viral_protease: Papain like viral protease; InterPro: IPR014827 This family of viral proteases are similar to the papain protease and are required for proteolytic processing of the replicase polyprotein. The structure of this protein has shown it adopts a fold similar to that of de-ubiquitinating enzymes []. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity; PDB: 3MP2_A 3EWP_B 3EWO_B 2FE8_A 3MJ5_B 3EKE_A 3EJF_A 3JZT_H 3ETI_E 3E9S_A.
Probab=26.90 E-value=1.1e+02 Score=27.96 Aligned_cols=79 Identities=23% Similarity=0.236 Sum_probs=40.1
Q ss_pred HHHHHHHHHhhhc----------CcEEEEeCCCCChhHHHHHHHHhcCc--hhHHHHHHHHHHHHhhccccccccccccH
Q 027331 71 LDHQRLLQRLNVY----------GLYEVKVSGDGNCQFRALSDQMYKSP--EYHKHVRKEVVKQLKDCRSMYEGYVPMKY 138 (225)
Q Consensus 71 ~~~~~L~~~L~~~----------gL~~~~V~GDGNClFrAls~qL~~~~--~~h~~lR~~vv~~l~~n~~~f~~fv~~~~ 138 (225)
.|++.+..++..+ |+.+.+. .|+||.-.|.-.||-... -....+.++.-.|+..++..|..++
T Consensus 78 ld~~~~~~y~~~~~~kw~~~~~~g~~~Lkq-~dNNCwVna~~~~LQ~~~~~f~~~~l~~aw~~f~~G~~~~fVa~~---- 152 (320)
T PF08715_consen 78 LDHQQYVRYLSPLVQKWPVVVVNGFRVLKQ-SDNNCWVNAACLQLQALKIKFKSPGLDEAWNEFKAGDPAPFVAWC---- 152 (320)
T ss_dssp --TTHHHHHHHHHHTTS-EEEETTEEEE----TTTHHHHHHHHHHTTST--BSSHHHHHHHHHHHTT--HHHHHHH----
T ss_pred cCHHHHHHHHhhhcccceEEEECCEEEEEe-cCCCcHHHHHHHHHHhcCCccCCHHHHHHHHHHhCCChHHHHHHH----
Confidence 3555656555533 5554444 799999999888875442 1123556666677777766655544
Q ss_pred HHHHHhhcccCCCCCHHH
Q 027331 139 KRYYKNMAKVGEWGDHVT 156 (225)
Q Consensus 139 ~~Yl~~m~k~g~WGd~ie 156 (225)
|-..-.+.|..||-..
T Consensus 153 --Ya~~~~~~G~~gDa~~ 168 (320)
T PF08715_consen 153 --YASTNAKKGDPGDAEY 168 (320)
T ss_dssp --HHHTT--TTS---HHH
T ss_pred --HHHcCCCCCCCcCHHH
Confidence 2333355677776443
No 20
>TIGR02934 nifT_nitrog probable nitrogen fixation protein FixT. This largely uncharacterized protein family is assigned a role in nitrogen fixation by two criteria. First, its gene occurs, generally, among genes essential for expression of active nitrogenase. Second, its phylogenetic profile closely matches that of nitrogen-fixing bacteria. However, mutational studies in Klebsiella pneumoniae failed to demonstrate any phenotype for deletion or overexpression of the protein.
Probab=24.64 E-value=6 Score=28.04 Aligned_cols=28 Identities=32% Similarity=0.559 Sum_probs=22.7
Q ss_pred cccccc-ccHHHHHHhhcccCCCCCHHHH
Q 027331 130 YEGYVP-MKYKRYYKNMAKVGEWGDHVTL 157 (225)
Q Consensus 130 f~~fv~-~~~~~Yl~~m~k~g~WGd~ieL 157 (225)
+..|++ .++++-+-.+.+++.|||.++|
T Consensus 13 l~~YvpKKDLEE~Vv~~e~~~~WGG~v~L 41 (67)
T TIGR02934 13 LSAYVPKKDLEEVIVSVEKEELWGGWVTL 41 (67)
T ss_pred EEEEEECCcchhheeeeecCccccCEEEE
Confidence 566777 5888888889999999996555
No 21
>KOG4345 consensus NF-kappa B regulator AP20/Cezanne [Signal transduction mechanisms]
Probab=23.03 E-value=1.1e+02 Score=31.00 Aligned_cols=20 Identities=10% Similarity=0.165 Sum_probs=16.9
Q ss_pred HHHHHHHHHHhCCcEEEEec
Q 027331 154 HVTLQAAADKFAAKICLLTS 173 (225)
Q Consensus 154 ~ieL~A~A~~f~v~I~V~~~ 173 (225)
...+..+|+++++||+|+..
T Consensus 223 e~hifvl~~ilRrpivvvsd 242 (774)
T KOG4345|consen 223 EFHIFVLAHILRRPIVVVSD 242 (774)
T ss_pred HHHHHHHHHHhhCCeeEecc
Confidence 35688899999999999974
No 22
>KOG4100 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.59 E-value=72 Score=25.02 Aligned_cols=47 Identities=26% Similarity=0.544 Sum_probs=28.1
Q ss_pred hHHHHHHHHhcCchhHHHHHHHHHHHHhhccccccccccccHHHHHHhhcc----cCCCCC
Q 027331 97 QFRALSDQMYKSPEYHKHVRKEVVKQLKDCRSMYEGYVPMKYKRYYKNMAK----VGEWGD 153 (225)
Q Consensus 97 lFrAls~qL~~~~~~h~~lR~~vv~~l~~n~~~f~~fv~~~~~~Yl~~m~k----~g~WGd 153 (225)
--||++|+. ||.....+..-||.+-..|+ .+|+.|+..+.+ .|.|-+
T Consensus 29 ~~R~lGD~Y---------VkdEFrrHk~vnp~~~~~Fl-teW~~Ya~~l~qql~~~g~~K~ 79 (125)
T KOG4100|consen 29 ELRALGDQY---------VKDEFRRHKTVNPLEAQGFL-TEWERYAVALSQQLSSAGKWKG 79 (125)
T ss_pred HHHHHHHHH---------HHHHHHHhccCChHHHHHHH-HHHHHHHHHHHHHhhhcCcccc
Confidence 356666653 33344444445666656665 679999886644 577743
No 23
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=21.20 E-value=1.2e+02 Score=19.13 Aligned_cols=29 Identities=10% Similarity=-0.034 Sum_probs=21.3
Q ss_pred HHHHhhcccCCCCCHHHHHHHHHHhCCcE
Q 027331 140 RYYKNMAKVGEWGDHVTLQAAADKFAAKI 168 (225)
Q Consensus 140 ~Yl~~m~k~g~WGd~ieL~A~A~~f~v~I 168 (225)
.++.++......-.--.+.++|+.|++++
T Consensus 24 ~~i~~~~~g~~~~~~~~~~~ia~~l~~~~ 52 (55)
T PF01381_consen 24 STISRIENGKRNPSLDTLKKIAKALGVSP 52 (55)
T ss_dssp HHHHHHHTTSSTSBHHHHHHHHHHHTSEH
T ss_pred chhHHHhcCCCCCCHHHHHHHHHHHCCCH
Confidence 44555555566667788999999999874
No 24
>KOG3348 consensus BolA (bacterial stress-induced morphogen)-related protein [Signal transduction mechanisms]
Probab=21.15 E-value=69 Score=23.73 Aligned_cols=52 Identities=19% Similarity=0.221 Sum_probs=35.7
Q ss_pred HHHHHHHhhhcCcEEEEeCCCCChhHHH--HHHHHhcCc--hhHHHHHHHHHHHHh
Q 027331 73 HQRLLQRLNVYGLYEVKVSGDGNCQFRA--LSDQMYKSP--EYHKHVRKEVVKQLK 124 (225)
Q Consensus 73 ~~~L~~~L~~~gL~~~~V~GDGNClFrA--ls~qL~~~~--~~h~~lR~~vv~~l~ 124 (225)
.+.|.+.|+...+.+.++.|.--|.|+. +|.++-|-. ..|..|-..+.+.|+
T Consensus 9 ~~~L~~~l~p~~v~V~D~SgGCG~~F~v~IvS~~FeGKs~L~rHRlVN~~L~Eeik 64 (85)
T KOG3348|consen 9 EELLTEALEPEHVEVQDVSGGCGSMFDVVIVSAAFEGKSLLARHRLVNSILAEEIK 64 (85)
T ss_pred HHHHHhhcCceEEEEEEcCCCccceEEEEEEccccCChHHHHHHHHHHHHHHHHHH
Confidence 3567777778888899998877778887 466666643 356666665555553
No 25
>cd03346 eu_TrpOH Eukaryotic tryptophan hydroxylase (TrpOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH) and eukaryotic tyrosine hydroxylase (TyrOH). TrpOH oxidizes L-tryptophan to 5-hydroxy-L-tryptophan, the rate-limiting step in the biosynthesis of serotonin (5-hydroxytryptamine), a widely distributed hormone and neurotransmitter.
Probab=21.06 E-value=1.8e+02 Score=26.30 Aligned_cols=92 Identities=11% Similarity=0.074 Sum_probs=56.7
Q ss_pred HHHHHHhhh-cCcEEEEeCC--CCChhHHHHHHHHhcCchhHHHHHHH-HHHHHhhcccccccc---c----cccHHHHH
Q 027331 74 QRLLQRLNV-YGLYEVKVSG--DGNCQFRALSDQMYKSPEYHKHVRKE-VVKQLKDCRSMYEGY---V----PMKYKRYY 142 (225)
Q Consensus 74 ~~L~~~L~~-~gL~~~~V~G--DGNClFrAls~qL~~~~~~h~~lR~~-vv~~l~~n~~~f~~f---v----~~~~~~Yl 142 (225)
+.+.+.|+. -|..++.|+| ...=||..||.-.+... ..||.. -.+|+ ..||.|-.. + +-.|.+|.
T Consensus 110 ~dvn~~L~~~TGw~~~pV~Gli~~~~Ff~~LA~r~Fp~t---~~IR~~~~~~Yt-pEPDifHEl~GHvPlLadp~FA~f~ 185 (287)
T cd03346 110 EDVSRFLKERTGFTIRPVAGYLSPRDFLAGLAFRVFHCT---QYVRHSSDPFYT-PEPDTCHELLGHVPLLADPSFAQFS 185 (287)
T ss_pred HHHHHHHHhccCCEEEecCCcCCHHHHHHHHhcCcccce---eeecCccccCCC-CCCchHHHHhccchhhcCHHHHHHH
Confidence 346778876 5999999998 56668888888776543 334421 11111 123322111 1 24788888
Q ss_pred HhhcccCCCCCHHHHHHHHHHhCCcEE
Q 027331 143 KNMAKVGEWGDHVTLQAAADKFAAKIC 169 (225)
Q Consensus 143 ~~m~k~g~WGd~ieL~A~A~~f~v~I~ 169 (225)
....+-+-=+++-++..+|++|---|.
T Consensus 186 q~~G~~~l~a~~~~i~~LarlYWfTVE 212 (287)
T cd03346 186 QEIGLASLGASDEDIQKLATCYFFTVE 212 (287)
T ss_pred HHHHHHhcCCCHHHHHHHhHhhhhhcc
Confidence 876544433577888889999865544
Done!