Query 015599
Match_columns 404
No_of_seqs 290 out of 1275
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 07:49:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015599.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015599hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd02125 PA_VSR PA_VSR: Proteas 99.9 4.5E-27 9.8E-32 203.9 14.8 125 61-186 1-127 (127)
2 cd02126 PA_EDEM3_like PA_EDEM3 99.9 9.3E-23 2E-27 176.8 13.7 118 57-186 2-126 (126)
3 cd02123 PA_C_RZF_like PA_C-RZF 99.9 1.9E-22 4.1E-27 180.4 15.4 121 53-181 22-142 (153)
4 cd02127 PA_hPAP21_like PA_hPAP 99.9 4E-22 8.6E-27 170.9 14.1 114 61-187 1-117 (118)
5 cd02122 PA_GRAIL_like PA _GRAI 99.9 4.7E-22 1E-26 174.9 14.2 117 58-186 18-138 (138)
6 cd02132 PA_GO-like PA_GO-like: 99.9 8.3E-22 1.8E-26 173.6 15.0 121 52-186 16-139 (139)
7 cd04813 PA_1 PA_1: Protease-as 99.8 9.2E-20 2E-24 156.0 11.5 106 57-178 5-111 (117)
8 cd04816 PA_SaNapH_like PA_SaNa 99.8 1.9E-18 4.2E-23 148.7 14.3 115 60-186 6-122 (122)
9 cd02129 PA_hSPPL_like PA_hSPPL 99.8 1.5E-18 3.3E-23 148.6 12.2 95 74-182 23-118 (120)
10 cd02130 PA_ScAPY_like PA_ScAPY 99.8 3.9E-18 8.4E-23 146.8 14.0 114 55-186 9-122 (122)
11 cd04818 PA_subtilisin_1 PA_sub 99.8 6.4E-18 1.4E-22 144.4 13.8 113 59-186 2-118 (118)
12 KOG3920 Uncharacterized conser 99.7 2.5E-18 5.4E-23 150.4 6.1 152 16-180 7-165 (193)
13 cd02124 PA_PoS1_like PA_PoS1_l 99.7 5.5E-16 1.2E-20 134.9 12.1 92 79-186 38-129 (129)
14 cd04817 PA_VapT_like PA_VapT_l 99.7 8.1E-16 1.8E-20 135.2 13.2 104 62-182 27-137 (139)
15 KOG4628 Predicted E3 ubiquitin 99.7 1.2E-15 2.6E-20 151.0 13.5 116 53-179 34-150 (348)
16 PF02225 PA: PA domain; Inter 99.5 1.4E-14 3E-19 119.4 7.1 96 68-176 3-101 (101)
17 cd00538 PA PA: Protease-associ 99.5 6.2E-14 1.3E-18 119.8 11.0 99 80-186 28-126 (126)
18 PF02128 Peptidase_M36: Fungal 99.5 2.7E-15 5.8E-20 150.0 1.3 142 200-370 192-356 (378)
19 cd02133 PA_C5a_like PA_C5a_lik 99.5 1.4E-12 3.1E-17 115.2 14.5 100 60-178 15-114 (143)
20 cd04819 PA_2 PA_2: Protease-as 99.4 1.9E-12 4E-17 112.4 13.7 105 68-185 20-126 (127)
21 KOG2442 Uncharacterized conser 99.4 7.4E-13 1.6E-17 134.1 11.8 122 55-189 55-178 (541)
22 cd04815 PA_M28_2 PA_M28_2: Pro 99.3 3.4E-12 7.4E-17 111.8 8.8 109 62-186 8-134 (134)
23 cd02120 PA_subtilisin_like PA_ 99.1 4.1E-10 8.9E-15 96.7 9.9 85 81-181 36-121 (126)
24 cd02128 PA_TfR PA_TfR: Proteas 99.0 1.7E-09 3.7E-14 99.2 11.5 114 59-177 17-154 (183)
25 cd02121 PA_GCPII_like PA_GCPII 98.4 1.2E-06 2.7E-11 82.8 10.1 123 69-204 43-207 (220)
26 cd04822 PA_M28_1_3 PA_M28_1_3: 98.4 5.1E-06 1.1E-10 74.3 11.9 97 69-178 18-134 (151)
27 cd04814 PA_M28_1 PA_M28_1: Pro 98.3 1.9E-06 4.1E-11 76.3 8.2 71 58-135 10-100 (142)
28 cd02131 PA_hNAALADL2_like PA_h 98.3 1.4E-06 3E-11 77.4 7.2 105 68-177 12-138 (153)
29 cd04820 PA_M28_1_1 PA_M28_1_1: 98.2 5.6E-06 1.2E-10 72.8 8.1 64 68-135 19-96 (137)
30 cd04821 PA_M28_1_2 PA_M28_1_2: 95.6 0.029 6.4E-07 50.6 6.0 63 70-134 21-102 (157)
31 cd03023 DsbA_Com1_like DsbA fa 95.3 0.037 8E-07 47.8 5.7 82 309-401 68-149 (154)
32 PF13462 Thioredoxin_4: Thiore 86.0 9.5 0.00021 33.1 10.4 80 309-401 77-156 (162)
33 cd03022 DsbA_HCCA_Iso DsbA fam 83.9 1.2 2.6E-05 40.2 3.7 60 333-399 126-185 (192)
34 cd03024 DsbA_FrnE DsbA family, 81.9 1.5 3.2E-05 40.0 3.5 64 330-400 131-195 (201)
35 cd03019 DsbA_DsbA DsbA family, 80.9 1.9 4.1E-05 38.3 3.8 60 330-396 99-158 (178)
36 PRK10954 periplasmic protein d 73.4 3.5 7.7E-05 38.3 3.4 75 309-394 106-180 (207)
37 PF01323 DSBA: DSBA-like thior 68.6 3.6 7.9E-05 36.9 2.3 63 330-399 123-186 (193)
38 KOG2195 Transferrin receptor a 61.7 9.1 0.0002 42.5 4.1 66 66-134 153-218 (702)
39 PF07172 GRP: Glycine rich pro 61.2 5 0.00011 33.2 1.5 27 9-36 1-27 (95)
40 COG1786 Swiveling domain assoc 59.7 76 0.0017 27.7 8.5 74 96-185 46-122 (131)
41 COG4882 Predicted aminopeptida 48.1 1.1E+02 0.0023 31.6 8.8 72 100-175 89-162 (486)
42 cd03025 DsbA_FrnE_like DsbA fa 39.8 28 0.0006 31.2 3.1 53 332-391 127-179 (193)
43 PRK03955 hypothetical protein; 37.0 2.9E+02 0.0062 24.2 8.9 68 100-185 50-120 (131)
44 cd04727 pdxS PdxS is a subunit 31.1 59 0.0013 32.2 3.8 68 112-182 16-90 (283)
45 PF13192 Thioredoxin_3: Thiore 28.9 25 0.00054 27.1 0.7 19 377-395 45-64 (76)
46 KOG3160 Gamma-interferon induc 28.2 70 0.0015 30.5 3.8 57 336-397 140-196 (220)
47 TIGR00411 redox_disulf_1 small 28.1 24 0.00052 26.7 0.5 24 378-401 50-74 (82)
48 cd03026 AhpF_NTD_C TRX-GRX-lik 26.4 36 0.00077 27.3 1.2 26 377-402 61-87 (89)
49 COG5540 RING-finger-containing 26.2 26 0.00057 34.9 0.5 34 103-136 149-182 (374)
50 PF13605 DUF4141: Domain of un 25.2 58 0.0013 24.2 2.0 21 27-54 13-33 (55)
51 cd03021 DsbA_GSTK DsbA family, 22.8 60 0.0013 30.0 2.2 55 334-395 136-198 (209)
52 TIGR00343 pyridoxal 5'-phospha 21.5 57 0.0012 32.3 1.8 54 112-168 18-77 (287)
53 TIGR02196 GlrX_YruB Glutaredox 21.5 84 0.0018 22.6 2.4 22 379-401 48-69 (74)
54 COG1651 DsbG Protein-disulfide 20.8 92 0.002 29.2 3.1 84 309-401 150-235 (244)
55 PF10419 TFIIIC_sub6: TFIIIC s 20.4 75 0.0016 21.3 1.7 16 382-397 10-25 (35)
No 1
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=99.95 E-value=4.5e-27 Score=203.91 Aligned_cols=125 Identities=61% Similarity=1.032 Sum_probs=103.2
Q ss_pred ccCCCCCCCceEEEEEecCCCCCCCCCCCCCC-CCC-CCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCc
Q 015599 61 NFGIPDYGGFMVGSVIYPDKGASGCQPFEGDK-PFK-SKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPL 138 (404)
Q Consensus 61 ~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~-~~~-~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l 138 (404)
+||.|+||++++|.|++++++.+||++++... +.+ .....++|+||+||+|+|.+|++|||++||++|||||+.++++
T Consensus 1 ~FG~~~yg~~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~ 80 (127)
T cd02125 1 NFGLPQYGGTLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVDEPL 80 (127)
T ss_pred CCCCCCcCCeeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCCCcc
Confidence 69999999999999999988999999987421 110 0134689999999999999999999999999999999988777
Q ss_pred cccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 139 ITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 139 ~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
+.|..++++. ..++..+++||+++|++++|+.|++++++|..|++++
T Consensus 81 ~~m~~~~~~~-~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g~~V~v~~ 127 (127)
T cd02125 81 LTMDTPEESG-SADYIEKITIPSALITKAFGEKLKKAISNGEMVVIKL 127 (127)
T ss_pred ccccCccccc-ccccCCCceEeEEEECHHHHHHHHHHHhcCCeEEEeC
Confidence 7886543311 0133457899999999999999999999999998874
No 2
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=99.89 E-value=9.3e-23 Score=176.75 Aligned_cols=118 Identities=24% Similarity=0.403 Sum_probs=95.7
Q ss_pred ccccccCCCCCCC-ceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCC
Q 015599 57 SAIGNFGIPDYGG-FMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVD 135 (404)
Q Consensus 57 ~~~A~FG~~~~~~-~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~ 135 (404)
..+|.||.+.+.. .+.|.|+. ++|.+||++..++..+ +++|+||+||+|+|.+|+++||++||+||||+|+.+
T Consensus 2 ~~pa~FG~~~~~~~~~~g~l~~-~~p~~gC~~~~~~~~~-----~gkIaLv~RG~C~f~~K~~~Aq~aGA~avII~n~~~ 75 (126)
T cd02126 2 AGPAQFGMDLTGDKAGVGRVVK-AKPYRACSEITNAEEV-----KGKIAIMERGDCMFVEKARRVQKAGAIGGIVIDNNE 75 (126)
T ss_pred CCCcccCCcCCCCCCceEEEEe-CCchhcccCCCCcccc-----CceEEEEECCCCcHHHHHHHHHHCCCcEEEEEECCC
Confidence 4688999888864 68999987 4678999988754344 599999999999999999999999999999999876
Q ss_pred CC------ccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 136 EP------LITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 136 ~~------l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
++ ++.|.... .....++||+++|+++||+.|+++++++.+|++.+
T Consensus 76 ~~~~~~~~~~~m~~~~------~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~~~ 126 (126)
T cd02126 76 GSSSDTAPMFAMSGDG------DSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEVLL 126 (126)
T ss_pred CccccccceeEeecCC------CCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEEeC
Confidence 42 34553211 01236899999999999999999999998888764
No 3
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce
Probab=99.89 E-value=1.9e-22 Score=180.42 Aligned_cols=121 Identities=26% Similarity=0.442 Sum_probs=101.0
Q ss_pred eeeeccccccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEE
Q 015599 53 SKHDSAIGNFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVAD 132 (404)
Q Consensus 53 ~~~~~~~A~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~n 132 (404)
..|++.+|.||.+++++.++|.|++ ++|.+||+++.+++ +......++|+||+||+|+|.+|++|||++||++|||||
T Consensus 22 ~~~~~~~A~FG~~~~~~~~~g~lv~-~~p~~gC~~~~~~~-~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avII~n 99 (153)
T cd02123 22 DEFDDLPANFGPIPPGSGLKGVLVV-AEPLNACSPIENPP-LNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAIVYN 99 (153)
T ss_pred ceEeeecccCCCCCCCCceEEEEEe-CCccccCCCCcccc-cccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEEEEE
Confidence 5689999999999999999999887 56899999987422 122334699999999999999999999999999999999
Q ss_pred CCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCE
Q 015599 133 SVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEE 181 (404)
Q Consensus 133 n~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~ 181 (404)
+.++.+..|...+. ...+++||+++|++++|+.|++.++.++.
T Consensus 100 ~~~~~~~~m~~~~~------~~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 100 DESNDLISMSGNDQ------EIKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred CCCCcceeccCCCC------CCcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 98777777753221 12478999999999999999999998776
No 4
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.88 E-value=4e-22 Score=170.87 Aligned_cols=114 Identities=19% Similarity=0.323 Sum_probs=93.2
Q ss_pred ccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCC---C
Q 015599 61 NFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDE---P 137 (404)
Q Consensus 61 ~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~---~ 137 (404)
+||.+..++.+.|+|+. ++|.+||++..+...+ +++|+||+||+|+|.+|++|||++||+||||||+.++ .
T Consensus 1 ~~~~~~~~~~~~~~lv~-~~p~~gC~~~~~~~~~-----~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~ 74 (118)
T cd02127 1 DFGTIFNTRYKHVPLVP-ADPLEACEELRNIHDI-----NGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSDEY 74 (118)
T ss_pred CCCccccccccceEEEE-CCccccCCCCCCcccc-----CCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCcccc
Confidence 48888888888888876 5689999987653344 5999999999999999999999999999999998754 2
Q ss_pred ccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEEE
Q 015599 138 LITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKLD 187 (404)
Q Consensus 138 l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l~ 187 (404)
.+.|... +...+++||+++|++++|+.|++.+++|..+++.+.
T Consensus 75 ~~~m~~~-------~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~~~~ 117 (118)
T cd02127 75 YVEMIQD-------DSSRRADIPAAFLLGKNGYMIRKTLERLGLPYAIIN 117 (118)
T ss_pred ceEecCC-------CCCCCceEEEEEecHHHHHHHHHHHHcCCceEEeee
Confidence 3456432 123468999999999999999999999988876653
No 5
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=99.88 E-value=4.7e-22 Score=174.85 Aligned_cols=117 Identities=23% Similarity=0.370 Sum_probs=95.5
Q ss_pred cccccCCCCCCCceEEEEEe--cCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCC
Q 015599 58 AIGNFGIPDYGGFMVGSVIY--PDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVD 135 (404)
Q Consensus 58 ~~A~FG~~~~~~~l~G~lv~--~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~ 135 (404)
.+|+||.+.+.+.+.|.|+. ++++.+||+++++... .....++||||+||+|+|.+|++|||++||++|||||+.+
T Consensus 18 ~~a~fg~~~~~~~~~G~l~~~~~~~~~~gC~~~~~~~~--~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~~~ 95 (138)
T cd02122 18 ESGRYGEHSPKEEAKGLVVVPDPPNDHYGCDPDTRFPI--PPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNNPG 95 (138)
T ss_pred cccccCCCCCCCccEEEEecCCCCCCcCCCCCCccccC--CccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence 48999999999999999764 4567899999874100 0123699999999999999999999999999999999985
Q ss_pred --CCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 136 --EPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 136 --~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
+.++.|...+ ...||+++|++++|+.|++++++|.+|++++
T Consensus 96 ~~~~~~~m~~~~----------~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~~ 138 (138)
T cd02122 96 TGNETVKMSHPG----------TGDIVAIMITNPKGMEILELLERGISVTMVI 138 (138)
T ss_pred CCCceeeccCCC----------CCcceEEEEcHHHHHHHHHHHHcCCcEEEeC
Confidence 2355664321 3479999999999999999999999888763
No 6
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.88 E-value=8.3e-22 Score=173.60 Aligned_cols=121 Identities=23% Similarity=0.381 Sum_probs=98.9
Q ss_pred ceeeeccccccCCCCCC---CceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEE
Q 015599 52 RSKHDSAIGNFGIPDYG---GFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAV 128 (404)
Q Consensus 52 ~~~~~~~~A~FG~~~~~---~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~av 128 (404)
..+|.+.+|.||..++. +.+++.++. +++.+||+++++ ++ +++|+||+||+|+|.+|++|||++||++|
T Consensus 16 ~~~~~~~~a~FG~~~p~~~~~~~~~~lv~-~~~~~gC~~~~~--~~-----~g~IvLV~RG~C~F~~K~~nA~~aGA~av 87 (139)
T cd02132 16 GDELVGVTARFGASLPSKEDNANKTRAVL-ANPLDCCSPSTS--KL-----SGSIALVERGECAFTEKAKIAEAGGASAL 87 (139)
T ss_pred ccEEEeeccccCCCCCCcccCccEEEEEE-CCcccccCCCCc--cc-----CCeEEEEECCCCCHHHHHHHHHHcCCcEE
Confidence 45899999999987764 457888877 467899999863 44 59999999999999999999999999999
Q ss_pred EEEECCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 129 LVADSVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 129 II~nn~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
||||+.++ +..|....+ +...+++||+++|++++|+.|+++|++|..|++++
T Consensus 88 Iv~n~~~~-~~~~~~~~~-----~~~~~~~IP~v~Is~~~G~~L~~~l~~g~~Vtv~~ 139 (139)
T cd02132 88 LIINDQEE-LYKMVCEDN-----DTSLNISIPVVMIPQSAGDALNKSLDQGKKVEVLL 139 (139)
T ss_pred EEEECCCc-ccccccCCC-----CCCCCCcEeEEEecHHHHHHHHHHHHcCCcEEEeC
Confidence 99998754 455643221 12235899999999999999999999999888763
No 7
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=99.82 E-value=9.2e-20 Score=156.01 Aligned_cols=106 Identities=29% Similarity=0.302 Sum_probs=84.2
Q ss_pred ccccccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCC
Q 015599 57 SAIGNFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDE 136 (404)
Q Consensus 57 ~~~A~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~ 136 (404)
...|.||++. ...+++... .+|.+||++++ ..++ +++||||+||+|+|.+|++|||++||++|||||+.++
T Consensus 5 ~~~~~~~~~~-~~~~~~~~~--~~p~~gC~~~~-~~~l-----~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~~ 75 (117)
T cd04813 5 GRYASFSPIL-NPHLRGSYK--VSPTDACSLQE-HAEI-----DGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPG 75 (117)
T ss_pred ccccccCCcc-Ccccccccc--CCCCCCCCCCC-cCCc-----CCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCc
Confidence 3568899554 566777643 67899999884 3344 6999999999999999999999999999999998764
Q ss_pred -CccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhc
Q 015599 137 -PLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKK 178 (404)
Q Consensus 137 -~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~ 178 (404)
.++.|..++ ....++||+++|++++|+.|++++.+
T Consensus 76 ~~~~~m~~~~-------~~~~v~IPav~Is~~~g~~L~~l~~~ 111 (117)
T cd04813 76 RGLITMFSNG-------DTDNVTIPAMFTSRTSYHLLSSLLPK 111 (117)
T ss_pred ccceecccCC-------CCCCcEEEEEEEcHHHHHHHHHhccc
Confidence 355664322 13468999999999999999988754
No 8
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.79 E-value=1.9e-18 Score=148.72 Aligned_cols=115 Identities=23% Similarity=0.332 Sum_probs=89.5
Q ss_pred cccCCCCCCCceEEEEEecCC-CCCCCCCCCCC-CCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCC
Q 015599 60 GNFGIPDYGGFMVGSVIYPDK-GASGCQPFEGD-KPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEP 137 (404)
Q Consensus 60 A~FG~~~~~~~l~G~lv~~~~-~~~gC~~~~~~-~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~ 137 (404)
..|++..++++++|+|++... ..+||++.+.. .++ +|||+|++||+|+|.+|++|||++||+++||+|+.++.
T Consensus 6 ~~~~~~~~~~gi~~~lv~~~~~~~~gC~~~~~~~~~~-----~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~ 80 (122)
T cd04816 6 LSYSPSTPPGGVTAPLVPLDPERPAGCDASDYDGLDV-----KGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGG 80 (122)
T ss_pred EeccCCCCCCCcEEEEEEcCCCCccCCCccccCCCCc-----CCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCc
Confidence 347766667899999999643 35999987532 234 69999999999999999999999999999999987643
Q ss_pred ccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 138 LITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 138 l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
...+.. .+ . ....+||+++|++++|+.|++++++|.+|++++
T Consensus 81 ~~~~~~-~~-----~-~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~~ 122 (122)
T cd04816 81 GTAGTL-GA-----P-NIDLKVPVGVITKAAGAALRRRLGAGETLELDA 122 (122)
T ss_pred cccccc-cC-----C-CCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEeC
Confidence 221111 10 0 135789999999999999999999998887753
No 9
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.78 E-value=1.5e-18 Score=148.61 Aligned_cols=95 Identities=20% Similarity=0.249 Sum_probs=73.3
Q ss_pred EEEecCCCCCCCCCCCCC-CCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCccccCCCCCCcccCC
Q 015599 74 SVIYPDKGASGCQPFEGD-KPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPLITMDSPEESTDANG 152 (404)
Q Consensus 74 ~lv~~~~~~~gC~~~~~~-~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l~~m~~~~d~~~~~~ 152 (404)
+|+. .+|..||++.+++ .++ +|+|+||+||+|+|.+|++|||++||+|||||||.+.. ..... .+
T Consensus 23 ~~~~-~~~~~gC~~~~~~~~~l-----~gkIaLV~RG~CsF~~K~~~Aq~aGA~aVII~nn~~~~--~~~~~------~~ 88 (120)
T cd02129 23 PLRN-LTSSVLCSASDVPPGGL-----KGKAVVVMRGNCTFYEKARLAQSLGAEGLLIVSRERLV--PPSGN------RS 88 (120)
T ss_pred eeec-CCCcCCCCccccCcccc-----CCeEEEEECCCcCHHHHHHHHHHCCCCEEEEEECCCCC--CCCCC------CC
Confidence 3444 5788999987642 244 59999999999999999999999999999999987532 11111 01
Q ss_pred CccccCceEEEEeHHHHHHHHHHHhcCCEE
Q 015599 153 YVEKIGIPSALIDRAFGLSLKEALKKGEEV 182 (404)
Q Consensus 153 ~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V 182 (404)
...+++||++||+++||+.|++.+.++-+|
T Consensus 89 ~~~~v~IP~v~Is~~dG~~i~~~l~~~~~v 118 (120)
T cd02129 89 EYEKIDIPVALLSYKDMLDIQQTFGDSVKV 118 (120)
T ss_pred CCcCCcccEEEEeHHHHHHHHHHhccCcEE
Confidence 124689999999999999999999865333
No 10
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=99.78 E-value=3.9e-18 Score=146.76 Aligned_cols=114 Identities=25% Similarity=0.302 Sum_probs=86.6
Q ss_pred eeccccccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECC
Q 015599 55 HDSAIGNFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSV 134 (404)
Q Consensus 55 ~~~~~A~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~ 134 (404)
|.... |+..++ ++.+|+|++. +.+||++.+++.++ +++||||+||+|+|.+|++||+++||++|||||+.
T Consensus 9 ~~~~~--~~~~~~-~~~~g~lv~~--~~~gC~~~~~~~~~-----~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~ 78 (122)
T cd02130 9 IPTTA--FTYSPA-GEVTGPLVVV--PNLGCDAADYPASV-----AGNIALIERGECPFGDKSALAGAAGAAAAIIYNNV 78 (122)
T ss_pred Eeeee--cccCCC-CCcEEEEEEe--CCCCCCcccCCcCC-----CCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECC
Confidence 44444 444444 5678999985 46899986643334 69999999999999999999999999999999987
Q ss_pred CCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 135 DEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 135 ~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
.........+ ......||+++|++++|+.|++.+++|++|++++
T Consensus 79 ~~~~~~~~~~--------~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~~ 122 (122)
T cd02130 79 PAGGLSGTLG--------EPSGPYVPTVGISQEDGKALVAALANGGEVSANL 122 (122)
T ss_pred CCcccccccC--------CCCCCEeeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 3221111111 1125789999999999999999999999888764
No 11
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=99.77 E-value=6.4e-18 Score=144.44 Aligned_cols=113 Identities=35% Similarity=0.553 Sum_probs=92.2
Q ss_pred ccccCCCCCC---CceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCC
Q 015599 59 IGNFGIPDYG---GFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVD 135 (404)
Q Consensus 59 ~A~FG~~~~~---~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~ 135 (404)
+|.||..... +.+.|.++. +++.++|++......+ +|||+|++||+|+|.+|+++|+++||+++||+|+.+
T Consensus 2 ~a~fg~~~~~~~~~~~~~~~~~-~~~~~~C~~~~~~~~v-----~GkIvL~~rg~c~f~~k~~~a~~aGA~gvIi~~~~~ 75 (118)
T cd04818 2 SAGFGPALTNVTADVVLAGAAP-ASNTDGCTAFTNAAAF-----AGKIALIDRGTCNFTVKVLNAQNAGAIAVIVANNVA 75 (118)
T ss_pred CcccCCcCccccccceeEEEec-CCcccccCCCCcCCCC-----CCEEEEEECCCCCHHHHHHHHHHCCCeEEEEEECCC
Confidence 6889977664 458888876 5789999988743334 699999999999999999999999999999999876
Q ss_pred CC-ccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 136 EP-LITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 136 ~~-l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
+. .+.|+.+. ....||+++|++++|+.|++++++|.+|++++
T Consensus 76 ~~~~~~~~~~~---------~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~~ 118 (118)
T cd04818 76 GGAPITMGGDD---------PDITIPAVMISQADGDALKAALAAGGTVTVTL 118 (118)
T ss_pred CCcceeccCCC---------CCCEEeEEEecHHHHHHHHHHHhcCCcEEEeC
Confidence 42 34564221 24679999999999999999999998888764
No 12
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.74 E-value=2.5e-18 Score=150.38 Aligned_cols=152 Identities=22% Similarity=0.341 Sum_probs=112.9
Q ss_pred HHHHHHHHHHHHhcccceeeEEeec-CeEEEEcCCCcceeeeccccc-cCCCCCCCceEEEEEecCCCCCCCCCCCCCCC
Q 015599 16 KLTALLLILTVVFSSSVSARFVVEK-SSIRVLHPQSLRSKHDSAIGN-FGIPDYGGFMVGSVIYPDKGASGCQPFEGDKP 93 (404)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~ve~-~~l~V~~P~~l~~~~~~~~A~-FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~ 93 (404)
++++++|..-++++..-.-.+-... -.|+|++|.+|+++|+..+|. ||...+ .++.+.-.++++|..||+.+.+...
T Consensus 7 l~l~~~L~~~vaa~~~~~~~v~~qD~~~F~vlsP~~l~Yty~~~pAkdfG~~F~-~r~e~~~lV~adPp~aC~elrN~~f 85 (193)
T KOG3920|consen 7 LLLSFLLIIQVAAAKIPYEEVENQDNMLFTVLSPYTLAYTYQMKPAKDFGVHFP-DRFENLELVLADPPHACEELRNEIF 85 (193)
T ss_pred hHHHHHHHHHHHHccCCcceeeecceEEEEecCcccEEEEEEecchhhhccccc-hhhcCcceeecCChhHHHHHhhccc
Confidence 4455555555554442222222222 258999999999999999987 997765 4677754555899999999985433
Q ss_pred CCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCC-----ccccCCCCCCcccCCCccccCceEEEEeHHH
Q 015599 94 FKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEP-----LITMDSPEESTDANGYVEKIGIPSALIDRAF 168 (404)
Q Consensus 94 ~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~-----l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~d 168 (404)
. .+.|+|++||+|+|..|.+++|++||.++||.|+.... .+.|- + | .+.++.+||++++-..+
T Consensus 86 ~-----~d~vaL~eRGeCSFl~Ktl~~e~aGa~aiiitd~~~~~~sf~~YveMI-~-D-----~sq~~AniPa~fllg~~ 153 (193)
T KOG3920|consen 86 A-----PDSVALMERGECSFLVKTLNGEKAGATAIIITDSQNYEYSFHQYVEMI-P-D-----ESQDRANIPAVFLLGVT 153 (193)
T ss_pred C-----CCcEEEEecCCceeeehhhhhhhcCceEEEEecCCCCchhHHHHHHhc-C-c-----ccccccCCceEEEeccc
Confidence 3 47899999999999999999999999999999876432 35664 2 2 23457899999999999
Q ss_pred HHHHHHHHhcCC
Q 015599 169 GLSLKEALKKGE 180 (404)
Q Consensus 169 G~~L~~~l~~g~ 180 (404)
|-.++..|+.-.
T Consensus 154 Gy~ir~sL~r~~ 165 (193)
T KOG3920|consen 154 GYYIRVSLKRYF 165 (193)
T ss_pred eEEEehhHHHhC
Confidence 999998887644
No 13
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.67 E-value=5.5e-16 Score=134.92 Aligned_cols=92 Identities=26% Similarity=0.397 Sum_probs=71.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCccccCCCCCCcccCCCccccC
Q 015599 79 DKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPLITMDSPEESTDANGYVEKIG 158 (404)
Q Consensus 79 ~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l~~m~~~~d~~~~~~~~~~i~ 158 (404)
+.+.+||++++...+ ..+++|+||+||+|+|.+|++|||++||++|||||+.++.. .+... ....
T Consensus 38 ~~~~~gC~~~~~~~~----~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~~-~~~~~----------~~~~ 102 (129)
T cd02124 38 SVADDACQPLPDDTP----DLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGPT-DQVGS----------DADS 102 (129)
T ss_pred CCCcccCcCCCcccc----cccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCcc-cccCC----------CCcc
Confidence 357799999863211 23699999999999999999999999999999999876543 23211 1234
Q ss_pred ceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 159 IPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 159 IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
||.+++ +++|++|+++|++|.+|++++
T Consensus 103 ~~~~~~-~~~G~~l~~~l~~G~~vtv~f 129 (129)
T cd02124 103 IIAAVT-PEDGEAWIDALAAGSNVTVDF 129 (129)
T ss_pred eeeEEe-HHHHHHHHHHHhcCCeEEEeC
Confidence 566666 999999999999998888764
No 14
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.67 E-value=8.1e-16 Score=135.19 Aligned_cols=104 Identities=27% Similarity=0.247 Sum_probs=75.8
Q ss_pred cCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCC-----HHHHHHHHHHcCCcEEEEEECC--
Q 015599 62 FGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECY-----FALKVWHGQQAGAAAVLVADSV-- 134 (404)
Q Consensus 62 FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~Cs-----F~~Kv~nAQ~aGA~avII~nn~-- 134 (404)
|-.....+.++|+|++.. .-+|+-. ..++ +|||+||+||+|+ |.+|++|||++||+|||||||.
T Consensus 27 ~~s~~~~g~~tg~lv~~g--~~g~d~~--~~d~-----~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~ 97 (139)
T cd04817 27 YASMPVTGSATGSLYYCG--TSGGSYI--CGGM-----AGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAAL 97 (139)
T ss_pred ccccccCCcceEEEEEcc--CCCcccc--CCCc-----CccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCC
Confidence 433334468899998853 3457321 1233 5999999999999 9999999999999999999997
Q ss_pred CCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEE
Q 015599 135 DEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEV 182 (404)
Q Consensus 135 ~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V 182 (404)
++.+..+.. ++ ...++||+++|++++|+.|+++|.++.+|
T Consensus 98 ~g~~~~~lg-~~-------~~~~~IP~v~is~~dG~~L~~~l~~~~tv 137 (139)
T cd04817 98 AGLQNPFLV-DT-------NNDTTIPSVSVDRADGQALLAALGQSTTV 137 (139)
T ss_pred CCccccccc-CC-------CCCceEeEEEeeHHHHHHHHHHhcCCCee
Confidence 332222211 11 12579999999999999999999766444
No 15
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=1.2e-15 Score=151.03 Aligned_cols=116 Identities=22% Similarity=0.273 Sum_probs=95.6
Q ss_pred eeeeccccccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEE
Q 015599 53 SKHDSAIGNFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVAD 132 (404)
Q Consensus 53 ~~~~~~~A~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~n 132 (404)
.+|...+|.||+....+.+.|.++. ++|.+||+++.+.+. .......+++||+||+|+|.+|+++||++|++|+||||
T Consensus 34 ~sf~d~~a~f~~s~~~e~~~G~l~~-~ep~~aC~~i~~~p~-~~~~~~~~laLI~Rg~CsFe~Kv~~AQ~aGfkaaIVyn 111 (348)
T KOG4628|consen 34 LSFADLPALFGPSLPSEGNLGVLVV-AEPLNACNPITNFPE-HSTRSTSFLALIRRGGCSFEDKVLNAQRAGFKAAIVYN 111 (348)
T ss_pred ccccCCccccCCccccccceeeeec-CCCccccCccccCcc-CCCCCcceEEEEEccCCchHHHHhhcccccCceEEEec
Confidence 3899999999999998999999866 678899999874222 23455689999999999999999999999999999999
Q ss_pred CCCCC-ccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcC
Q 015599 133 SVDEP-LITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKG 179 (404)
Q Consensus 133 n~~~~-l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g 179 (404)
|.+.+ ++.|... ..++.||+++|+...|+.|++.....
T Consensus 112 n~~~~~lv~~~~~---------~~~v~i~~~~vs~~~ge~l~~~~~~~ 150 (348)
T KOG4628|consen 112 NVGSEDLVAMASN---------PSKVDIHIVFVSVFSGELLSSYAGRT 150 (348)
T ss_pred CCCCchheeeccC---------CccceeEEEEEeeehHHHHHHhhccc
Confidence 87644 5666421 24699999999999999999975443
No 16
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=99.53 E-value=1.4e-14 Score=119.38 Aligned_cols=96 Identities=24% Similarity=0.415 Sum_probs=64.4
Q ss_pred CCceEEEEEecCC--CCCCCCCCC-CCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCccccCCC
Q 015599 68 GGFMVGSVIYPDK--GASGCQPFE-GDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPLITMDSP 144 (404)
Q Consensus 68 ~~~l~G~lv~~~~--~~~gC~~~~-~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l~~m~~~ 144 (404)
.+..+|+||.+.. ....|.+.. ....+ +|+|||++||.|+|.+|+++||++||+|+||+|..+.. ..+...
T Consensus 3 ~~~~~~~lV~~~~~~~~~~~~~~~~~~~~~-----~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~-~~~~~~ 76 (101)
T PF02225_consen 3 SGTVTGPLVPAGNGIDEGDCCPSDYNGSDV-----KGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNN-GSMIDS 76 (101)
T ss_dssp -EEEEEEEEEETTEEECCHHHHHHTSTSTC-----TTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSC-TTTTCE
T ss_pred CCCEEEEEEEecCCCCcccccccccCCccc-----cceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccc-cCcccc
Confidence 4567888883221 123333322 22333 69999999999999999999999999999999922111 111110
Q ss_pred CCCcccCCCccccCceEEEEeHHHHHHHHHHH
Q 015599 145 EESTDANGYVEKIGIPSALIDRAFGLSLKEAL 176 (404)
Q Consensus 145 ~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l 176 (404)
.......||+++|++++|+.|++++
T Consensus 77 -------~~~~~~~iP~v~I~~~~g~~L~~~i 101 (101)
T PF02225_consen 77 -------EDPDPIDIPVVFISYEDGEALLAYI 101 (101)
T ss_dssp -------BTTTSTBSEEEEE-HHHHHHHHHHH
T ss_pred -------cCCCCcEEEEEEeCHHHHhhhhccC
Confidence 1124689999999999999999875
No 17
>cd00538 PA PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=99.53 E-value=6.2e-14 Score=119.79 Aligned_cols=99 Identities=29% Similarity=0.338 Sum_probs=74.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCccccCCCCCCcccCCCccccCc
Q 015599 80 KGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPLITMDSPEESTDANGYVEKIGI 159 (404)
Q Consensus 80 ~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l~~m~~~~d~~~~~~~~~~i~I 159 (404)
.+..+|.+... ++.....+|+|||++||+|+|.+|+++||++||+|+||+|+.+.....+....+ ......|
T Consensus 28 ~~~~~C~~~~~--~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~~~------~~~~~~i 99 (126)
T cd00538 28 GPLVGCGYGTT--DDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSVGL------ESTDPSI 99 (126)
T ss_pred cceEEEecCcc--cccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccccC------CCCCCcE
Confidence 45678987651 122233469999999999999999999999999999999987643333321110 0135679
Q ss_pred eEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 160 PSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 160 Psv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
|+++|++++|+.|++++++|.+|++++
T Consensus 100 P~~~is~~~g~~l~~~~~~~~~v~~~~ 126 (126)
T cd00538 100 PTVGISYADGEALLSLLEAGKTVTVDL 126 (126)
T ss_pred eEEEeCHHHHHHHHHHHhcCCceEEeC
Confidence 999999999999999999988887653
No 18
>PF02128 Peptidase_M36: Fungalysin metallopeptidase (M36); InterPro: IPR001842 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M36 (fungalysin family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. Fungalysin is produced by fungi, Aspergillus and other species, to aid degradation of host lung cell walls on infection. The enzyme is a 42kDa single chain protein, with a pH optimum of 7.5-8.0 and optimal temperature of 60 celcius [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0005615 extracellular space
Probab=99.51 E-value=2.7e-15 Score=150.01 Aligned_cols=142 Identities=18% Similarity=0.292 Sum_probs=105.5
Q ss_pred eEEEeeecCCcccc----cchhhhHHHHhhhHHHHHHhcCCceeEEEEEEEeecCch---------hhcccccccccccC
Q 015599 200 EYELWTNSNDECGI----RCDEQMNFVKNFKGHAQILERGGYTLFTPHYITWYCPRA---------FILSSQCKSQCINH 266 (404)
Q Consensus 200 e~~~w~~s~~~~g~----~~~~~~~fi~~f~~~aq~l~~~g~~~f~p~~~~~~c~~~---------~~~~~~~~~~Ci~~ 266 (404)
||.| +.|||++|. .|.++ .+ ...| +|||+||++++++.+..++ +...+. ..
T Consensus 192 Ey~H-GiSnRLvgG~~~s~cL~~------~e--~~~m-GEGWsD~~Al~~~~~~~d~~~~~~~~G~y~~~~~------~~ 255 (378)
T PF02128_consen 192 EYGH-GISNRLVGGPANSSCLQN------LE--SGGM-GEGWSDFFALMMTMKPGDTRDTDYGIGTYVTGNP------TD 255 (378)
T ss_pred eecc-cccccccCCCcccccccc------cc--cCCC-cccHHHHHHHHheecccccCCCCceeeeeecCCc------cc
Confidence 9999 899999983 46432 21 3446 7999999999999886552 222222 25
Q ss_pred CccccCCC-CCCCCCCCCchhhHHHHHHHhhhhhhccccCCCchh--------hHHHHHHhhhcCccchhhhHHHHHHHH
Q 015599 267 GRYCAPDP-EQDFGEGYQGKDVVFENLRQLCVHRVANESNRSWVW--------WDYVTDFHIRCSMKEKRYSKECAEEVM 337 (404)
Q Consensus 267 Gryc~~dp-~~d~~~~~sG~dvv~E~lRqlci~~~~~~~~~~~~W--------W~Yv~~f~~~C~~~~~~y~~~C~~~v~ 337 (404)
|+++|+.| ++++..+ ..++..+... .+...|.+|.+| |++|++||+.-+ .|+.++++.++
T Consensus 256 g~GIR~~pYSt~~~~N----p~tY~~i~~~---~~~~~H~~GeVWA~~Lwe~~~~Lv~~~G~~~~----~~~~~~Gn~~~ 324 (378)
T PF02128_consen 256 GAGIRRYPYSTDMTVN----PLTYGDIGRD---GVSEVHAIGEVWATMLWEVYWALVDKHGFSPD----LYNGTGGNNRA 324 (378)
T ss_pred ccccccccccCCcCCC----CCcHhhhccC---cccccccCcchHHHHHHHHHHHHHHHhCCCCc----ccccccHHHHH
Confidence 67889988 5666544 3333333111 123348899988 999999999864 67778899999
Q ss_pred HHcCCChhhhccccCCc-cccccchHHHHHHHHH
Q 015599 338 KSLDLPIEKIRKCIGDP-EADVENEVLKTEQEFQ 370 (404)
Q Consensus 338 ~~l~id~~~i~~C~~~~-~~d~~n~iL~~e~~~q 370 (404)
+||++|++|+++| +| |+++||+||+|++...
T Consensus 325 ~~lv~dgmklqPc--nPtf~daRDAIl~Ad~~~~ 356 (378)
T PF02128_consen 325 MQLVVDGMKLQPC--NPTFVDARDAILQADQALY 356 (378)
T ss_pred HHHHHHHHhcCCC--CCChHHHHHHHHHHHHHHh
Confidence 9999999999999 77 8999999999998765
No 19
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=99.46 E-value=1.4e-12 Score=115.21 Aligned_cols=100 Identities=27% Similarity=0.296 Sum_probs=75.7
Q ss_pred cccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCcc
Q 015599 60 GNFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPLI 139 (404)
Q Consensus 60 A~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l~ 139 (404)
..++.+...+..++++|+.. . |.+-+ +.....+|+|+|++||+|+|.+|+++|+++||+++||+|+..+. .
T Consensus 15 ~~~~~~~~~~~~~~~lv~~g---~-g~~~d----~~~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~-~ 85 (143)
T cd02133 15 AFSGNPTDLLGKTYELVDAG---L-GTPED----FEGKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGL-I 85 (143)
T ss_pred ccCCCcCCCCCcEEEEEEcc---C-Cchhc----cCCCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCc-c
Confidence 45676666678999999853 2 23222 22223469999999999999999999999999999999987543 2
Q ss_pred ccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhc
Q 015599 140 TMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKK 178 (404)
Q Consensus 140 ~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~ 178 (404)
.+.. + ....||+++|++++|+.|++++++
T Consensus 86 ~~~~--~--------~~~~iP~v~Is~~dG~~L~~~l~~ 114 (143)
T cd02133 86 PGTL--G--------EAVFIPVVFISKEDGEALKAALES 114 (143)
T ss_pred cccC--C--------CCCeEeEEEecHHHHHHHHHHHhC
Confidence 2211 0 135699999999999999999987
No 20
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=99.44 E-value=1.9e-12 Score=112.39 Aligned_cols=105 Identities=21% Similarity=0.224 Sum_probs=77.0
Q ss_pred CCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCC--CHHHHHHHHHHcCCcEEEEEECCCCCccccCCCC
Q 015599 68 GGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGEC--YFALKVWHGQQAGAAAVLVADSVDEPLITMDSPE 145 (404)
Q Consensus 68 ~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~C--sF~~Kv~nAQ~aGA~avII~nn~~~~l~~m~~~~ 145 (404)
.+.++|++|+.. .| .+.+ +...+.+||||||+||.| +|..|+++|+++||+|+||+|+.++....+....
T Consensus 20 ~~~~~~~lV~~g---~G-~~~d----~~~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~~~~ 91 (127)
T cd04819 20 SGEAKGEPVDAG---YG-LPKD----FDGLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATGDEG 91 (127)
T ss_pred CCCeeEEEEEeC---CC-CHHH----cCCCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCccccccc
Confidence 356899999953 33 2211 212234699999999999 9999999999999999999987765432221111
Q ss_pred CCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEE
Q 015599 146 ESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIK 185 (404)
Q Consensus 146 d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~ 185 (404)
. .......||++.|+.+||++|++++++|+.|.++
T Consensus 92 ~-----~~~~~~~IP~v~Is~edg~~L~~~l~~g~~~~~~ 126 (127)
T cd04819 92 T-----EDGPPSPIPAASVSGEDGLRLARVAERNDTLVLR 126 (127)
T ss_pred c-----cCCCCCCCCEEEEeHHHHHHHHHHHhcCCceEee
Confidence 1 1123468999999999999999999998877654
No 21
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.43 E-value=7.4e-13 Score=134.09 Aligned_cols=122 Identities=22% Similarity=0.325 Sum_probs=92.9
Q ss_pred eeccccccCCCCCCCceEEEEEe--cCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEE
Q 015599 55 HDSAIGNFGIPDYGGFMVGSVIY--PDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVAD 132 (404)
Q Consensus 55 ~~~~~A~FG~~~~~~~l~G~lv~--~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~n 132 (404)
+....+.||..+....-...+.+ -.+|.|-|++.. .++ +++++++.||+|+|.+|+++||++||.|++|+|
T Consensus 55 ~a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~--~kl-----~~~~~~v~RGnC~Ft~Ka~~Aq~aGAsaLliin 127 (541)
T KOG2442|consen 55 FAGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQ--SKL-----SGKVALVFRGNCSFTEKAKLAQAAGASALLIIN 127 (541)
T ss_pred hhhhhhhcCCcCCCCccccccchhhhcCCccccCCCC--ccc-----cceeEEEecccceeehhhhhhhhcCceEEEEEc
Confidence 55667788876654322222221 136889999876 244 499999999999999999999999999999999
Q ss_pred CCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEEEec
Q 015599 133 SVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKLDWT 189 (404)
Q Consensus 133 n~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l~~~ 189 (404)
|..+ +.-|...+. ....+++||++||++++|+.+.+....+..|++.++-+
T Consensus 128 ~~~d-~~~~~~~~~-----~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~~lYaP 178 (541)
T KOG2442|consen 128 NKKD-LLFMPCGNK-----ETSLDVTIPVAMISYSDGRDLNKSTRSNDNVELALYAP 178 (541)
T ss_pred Cchh-hccCCCCCC-----CccccccceEEEEEhhhHHHHHhhhccCCeEEEEEECC
Confidence 9754 334443222 22357999999999999999999888899999999875
No 22
>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a
Probab=99.34 E-value=3.4e-12 Score=111.82 Aligned_cols=109 Identities=13% Similarity=0.092 Sum_probs=79.4
Q ss_pred cCCCCCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCC------CHHHH-------HHHHHHcCCcEE
Q 015599 62 FGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGEC------YFALK-------VWHGQQAGAAAV 128 (404)
Q Consensus 62 FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~C------sF~~K-------v~nAQ~aGA~av 128 (404)
|++...++.++|++++..++ + .+. .+.....+||||||+||.| +|..| ..+|+++||.|+
T Consensus 8 ~s~~t~~~gvta~vv~v~~~--~--~~~---~~~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~av 80 (134)
T cd04815 8 GSVATPPEGITAEVVVVKSF--D--ELK---AAPAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAV 80 (134)
T ss_pred CCCCCCCCCcEEEEEEECCH--H--HHH---hcchhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEE
Confidence 44444556799999986521 1 222 1111123699999999999 99999 799999999999
Q ss_pred EEEECCCCC---c--cccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 129 LVADSVDEP---L--ITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 129 II~nn~~~~---l--~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
||+|+.+.. . -+++.+ .....||++.|+.+||+.|.+++++|.+|+++|
T Consensus 81 Iv~s~~~~~~~~~~~G~~~~~---------~~~~~IP~v~is~ed~~~L~r~l~~g~~v~~~l 134 (134)
T cd04815 81 LIRSIGTDSHRSPHTGMMSYD---------DGVPKIPAAAISVEDADMLERLAARGKPIRVNL 134 (134)
T ss_pred EEEecCcccCCCCcCCccccC---------CCCCCCCEEEechhcHHHHHHHHhCCCCeEEeC
Confidence 999975332 1 122211 124679999999999999999999999888764
No 23
>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu
Probab=99.11 E-value=4.1e-10 Score=96.71 Aligned_cols=85 Identities=21% Similarity=0.228 Sum_probs=66.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCeEEEEecCCC-CHHHHHHHHHHcCCcEEEEEECCCCCccccCCCCCCcccCCCccccCc
Q 015599 81 GASGCQPFEGDKPFKSKFPRPTVLLLDRGEC-YFALKVWHGQQAGAAAVLVADSVDEPLITMDSPEESTDANGYVEKIGI 159 (404)
Q Consensus 81 ~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~C-sF~~Kv~nAQ~aGA~avII~nn~~~~l~~m~~~~d~~~~~~~~~~i~I 159 (404)
...+|++..... +..+|||||.+||.| +|.+|+.+|+++||.|+|++|+..+.. .+. .....|
T Consensus 36 ~~~~C~~~~~~~----~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~-~~~-----------~~~~~i 99 (126)
T cd02120 36 DASLCLPGSLDP----SKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGL-DVV-----------ADAHVL 99 (126)
T ss_pred ccccCCCCCCCh----hhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCc-eec-----------cccccc
Confidence 347898765321 223699999999999 999999999999999999999865431 111 113579
Q ss_pred eEEEEeHHHHHHHHHHHhcCCE
Q 015599 160 PSALIDRAFGLSLKEALKKGEE 181 (404)
Q Consensus 160 Psv~Is~~dG~~L~~~l~~g~~ 181 (404)
|+++|++++|+.|+++++++..
T Consensus 100 P~v~I~~~~g~~l~~y~~~~~~ 121 (126)
T cd02120 100 PAVHVDYEDGTAILSYINSTSN 121 (126)
T ss_pred ceEEECHHHHHHHHHHHHcCCC
Confidence 9999999999999999997643
No 24
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=99.05 E-value=1.7e-09 Score=99.18 Aligned_cols=114 Identities=20% Similarity=0.218 Sum_probs=73.7
Q ss_pred ccccCCCCCCCceEEEEEecCCCCCCCCCCCCCCCC--CCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCC
Q 015599 59 IGNFGIPDYGGFMVGSVIYPDKGASGCQPFEGDKPF--KSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDE 136 (404)
Q Consensus 59 ~A~FG~~~~~~~l~G~lv~~~~~~~gC~~~~~~~~~--~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~ 136 (404)
...|-.-...+.++|.||++ ..| .+.++. .+ .....+|+||||+||.|+|.+|+++||++||+|||||++..+
T Consensus 17 ~~~f~~~s~~G~v~g~lVyv---n~G-~~~Df~-~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d 91 (183)
T cd02128 17 PGGYVAYSAAGTVTGKLVYA---NYG-RKKDFE-DLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPAD 91 (183)
T ss_pred cccccCCCCCCceEEEEEEc---CCC-CHHHHH-HHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHH
Confidence 33454444457899999996 244 322211 00 012346999999999999999999999999999999987421
Q ss_pred C-------------------ccccCCCCCCc---ccCCCccccCceEEEEeHHHHHHHHHHHh
Q 015599 137 P-------------------LITMDSPEEST---DANGYVEKIGIPSALIDRAFGLSLKEALK 177 (404)
Q Consensus 137 ~-------------------l~~m~~~~d~~---~~~~~~~~i~IPsv~Is~~dG~~L~~~l~ 177 (404)
. +.|.+.+.... +.++...-.+||++=||.++++.|++.|.
T Consensus 92 ~~~~~~~~~~~g~~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~ 154 (183)
T cd02128 92 FPIDPSETALFGHVHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMG 154 (183)
T ss_pred cCcccCcceeecceeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcC
Confidence 1 11111111000 00011123579999999999999999985
No 25
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=98.43 E-value=1.2e-06 Score=82.84 Aligned_cols=123 Identities=21% Similarity=0.251 Sum_probs=78.5
Q ss_pred CceEEEEEecCCCCCCCCCCCCCCCCC--CCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCC---------
Q 015599 69 GFMVGSVIYPDKGASGCQPFEGDKPFK--SKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEP--------- 137 (404)
Q Consensus 69 ~~l~G~lv~~~~~~~gC~~~~~~~~~~--~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~--------- 137 (404)
+.++|+|||+ ..|...++. .+. ..+.+|+|||+++|.|.+..|+++|+++||+|||||++..+.
T Consensus 43 g~v~g~lVyv----nyG~~~D~~-~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp~d~~~~~~~~~~ 117 (220)
T cd02121 43 GNVTAELVYA----NYGSPEDFE-YLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDPADDGYITGENGK 117 (220)
T ss_pred CCceEEEEEc----CCCcHHHHH-HHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCchhcccccccccc
Confidence 5689999996 345543321 111 224479999999999999999999999999999999864211
Q ss_pred --------c---ccc-------CCCCCC-c----c--c------CCCccccCceEEEEeHHHHHHHHHHHhcCCEEEEEE
Q 015599 138 --------L---ITM-------DSPEES-T----D--A------NGYVEKIGIPSALIDRAFGLSLKEALKKGEEVVIKL 186 (404)
Q Consensus 138 --------l---~~m-------~~~~d~-~----~--~------~~~~~~i~IPsv~Is~~dG~~L~~~l~~g~~V~v~l 186 (404)
. +.. ..++|- | + + .....-.+||++=||..|++.|++.|.... +--
T Consensus 118 ~yP~g~~~~~~~vqRgsv~~~~~~~GDplTPG~ps~~~~~r~~~~~~~~lP~IPs~PIS~~da~~lL~~L~g~~---~p~ 194 (220)
T cd02121 118 TYPDGPARPPSGVQRGSVLFMSIGPGDPLTPGYPSKPGAERRDKEESKGLPKIPSLPISYRDAQPLLKALGGPG---APS 194 (220)
T ss_pred cCCCCCCCCCCcceecceeccccCCCCCCCCCCCCCCCCcccCcccccCCCCCCcccCCHHHHHHHHHHcCCCC---CCc
Confidence 0 000 011110 0 0 0 011123579999999999999999997432 334
Q ss_pred EeccCCCCCCCceeEEEe
Q 015599 187 DWTESMPHPDQRVEYELW 204 (404)
Q Consensus 187 ~~~~~~p~~d~~ve~~~w 204 (404)
+|...+ .+.|.+|
T Consensus 195 ~W~g~l-----~~~y~~g 207 (220)
T cd02121 195 DWQGGL-----PVTYRLG 207 (220)
T ss_pred cccCCC-----CCceeeC
Confidence 564433 2566664
No 26
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.37 E-value=5.1e-06 Score=74.28 Aligned_cols=97 Identities=16% Similarity=0.095 Sum_probs=65.3
Q ss_pred CceEEEEEecCC--CCCCCCCCCCCCCCCCCCCCCeEEEEecCC------------------CCHHHHHHHHHHcCCcEE
Q 015599 69 GFMVGSVIYPDK--GASGCQPFEGDKPFKSKFPRPTVLLLDRGE------------------CYFALKVWHGQQAGAAAV 128 (404)
Q Consensus 69 ~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~------------------CsF~~Kv~nAQ~aGA~av 128 (404)
+.++|+||++.. ...+|...++ ...+.+||||||.||. |+|..|+++|+++||+||
T Consensus 18 g~vtg~lVfvGyGi~~~~~~~~Dy----~giDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aV 93 (151)
T cd04822 18 GAVTAPVVFAGYGITAPELGYDDY----AGLDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAV 93 (151)
T ss_pred CCceEeEEEecCCcCccccchhhc----cCCCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEE
Confidence 679999999742 3456764442 2233479999999985 999999999999999999
Q ss_pred EEEECCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHHhc
Q 015599 129 LVADSVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEALKK 178 (404)
Q Consensus 129 II~nn~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l~~ 178 (404)
|||++..+.. .. .+.+... ..+ .++.|+.+..+.+..++..
T Consensus 94 Iv~~d~~~~~---~~-~~~~~~~----~~~-~~~~~~~~~~~~~~~~~~~ 134 (151)
T cd04822 94 IVVNGPNSHS---GD-ADRLPRF----GGT-APQRVDIAAADPWFTAAEA 134 (151)
T ss_pred EEEeCCcccC---cc-ccccccc----Ccc-ceEEechHHHHHHhhhhhh
Confidence 9999865432 10 1100000 011 1778888888888776443
No 27
>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a
Probab=98.34 E-value=1.9e-06 Score=76.26 Aligned_cols=71 Identities=15% Similarity=0.112 Sum_probs=53.1
Q ss_pred cccccCCCCCCCceEEEEEecCC--CCCCCCCCCCCCCCCCCCCCCeEEEEecCCC------------------CHHHHH
Q 015599 58 AIGNFGIPDYGGFMVGSVIYPDK--GASGCQPFEGDKPFKSKFPRPTVLLLDRGEC------------------YFALKV 117 (404)
Q Consensus 58 ~~A~FG~~~~~~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~C------------------sF~~Kv 117 (404)
.+.+|+.+ ..++++||++.. ...+|.-.++ ...+.+||||||.||+| +|..|+
T Consensus 10 ~~~~~~~~---~~~~aelVfvGyGi~a~~~~~dDY----ag~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~ 82 (142)
T cd04814 10 AMLNVDAV---AIKDAPLVFVGYGIKAPELSWDDY----AGLDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKY 82 (142)
T ss_pred cccCCCCc---cccceeeEEecCCcCCCCCChhhc----CCCCCCCcEEEEEcCCCCcccccccccccccccccCHHHHH
Confidence 34456632 568899998742 2345664432 23344799999999999 699999
Q ss_pred HHHHHcCCcEEEEEECCC
Q 015599 118 WHGQQAGAAAVLVADSVD 135 (404)
Q Consensus 118 ~nAQ~aGA~avII~nn~~ 135 (404)
++|+++||+||||+++.+
T Consensus 83 ~~A~~~GA~gvIii~~~~ 100 (142)
T cd04814 83 EEAARHGAAGVLIVHELA 100 (142)
T ss_pred HHHHHCCCcEEEEEeCCC
Confidence 999999999999999864
No 28
>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2). This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=98.33 E-value=1.4e-06 Score=77.39 Aligned_cols=105 Identities=14% Similarity=0.096 Sum_probs=67.1
Q ss_pred CCceEEEEEecCCCCCCCCC-CCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCCCc--------
Q 015599 68 GGFMVGSVIYPDKGASGCQP-FEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSVDEPL-------- 138 (404)
Q Consensus 68 ~~~l~G~lv~~~~~~~gC~~-~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~~l-------- 138 (404)
.++++|++||+- .|=.. +..=.. .-+.+|+|+|++.|.-.+..|++|||++||+|||||.+..+.-
T Consensus 12 sG~Vtg~~VYvN---yG~~eDf~~L~~--~V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d~~~~~~~~~~ 86 (153)
T cd02131 12 KGTLQAEVVDVQ---YGSVEDLRRIRD--NMNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCDLPKTRHTWHQ 86 (153)
T ss_pred CCceEEEEEEec---CCCHHHHHHHHh--CCCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhhccCcCCCccc
Confidence 468999999962 22211 110000 1234699999999999999999999999999999998752210
Q ss_pred ---cccCCCCCC-c----c--cC---CCccccCceEEEEeHHHHHHHHHHHh
Q 015599 139 ---ITMDSPEES-T----D--AN---GYVEKIGIPSALIDRAFGLSLKEALK 177 (404)
Q Consensus 139 ---~~m~~~~d~-~----~--~~---~~~~~i~IPsv~Is~~dG~~L~~~l~ 177 (404)
+..+.++|- | + +. ....-.+||+.=||..|+..|+++-.
T Consensus 87 v~~v~~~~~GDP~TPG~PS~~~~~R~~~~~lP~IPs~PIS~~dA~~lL~~~~ 138 (153)
T cd02131 87 AFMVSLNPGGDPSTPGYPSADQSCRQCRGNLTSLLVQPISAYLAKKLLSAPP 138 (153)
T ss_pred eEEEecCCCCCCCCCCCccccCcccCCcCCCCCCcccccCHHHHHHHHhCCc
Confidence 011111220 0 0 00 11123689999999999999887643
No 29
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.20 E-value=5.6e-06 Score=72.84 Aligned_cols=64 Identities=9% Similarity=0.008 Sum_probs=49.6
Q ss_pred CCceEEEEEecCC--CCCCCCCCCCCCCCCCCCCCCeEEEEecCCCC------------HHHHHHHHHHcCCcEEEEEEC
Q 015599 68 GGFMVGSVIYPDK--GASGCQPFEGDKPFKSKFPRPTVLLLDRGECY------------FALKVWHGQQAGAAAVLVADS 133 (404)
Q Consensus 68 ~~~l~G~lv~~~~--~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~Cs------------F~~Kv~nAQ~aGA~avII~nn 133 (404)
.+.++|+||++.. ...+|..-++ ...+.+||||||.||.|. +..|+++|+++||+||||+++
T Consensus 19 ~g~v~gelVfvGyG~~~~~~~~~Dy----~~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d 94 (137)
T cd04820 19 AASVEAPLVFVGYGLVAPELGHDDY----AGLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTT 94 (137)
T ss_pred CCCceEeEEEecCCcCccCcCHhhc----cCCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeC
Confidence 3579999999742 3456665442 223347999999999995 889999999999999999987
Q ss_pred CC
Q 015599 134 VD 135 (404)
Q Consensus 134 ~~ 135 (404)
..
T Consensus 95 ~~ 96 (137)
T cd04820 95 PR 96 (137)
T ss_pred Cc
Confidence 53
No 30
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=95.56 E-value=0.029 Score=50.55 Aligned_cols=63 Identities=14% Similarity=0.194 Sum_probs=41.1
Q ss_pred ceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHH-------------------HHHHHHHHcCCcEEEE
Q 015599 70 FMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFA-------------------LKVWHGQQAGAAAVLV 130 (404)
Q Consensus 70 ~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~-------------------~Kv~nAQ~aGA~avII 130 (404)
...++||++.....+ ..... .++...+.+||||||.+|+=.|. .|...|+++||+|||+
T Consensus 21 ~~~~elVFvGyGi~a-pe~~~-dDy~g~DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~ 98 (157)
T cd04821 21 LKDSPLVFVGYGIVA-PEYGW-DDYKGLDVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALI 98 (157)
T ss_pred cccCCEEEeccCccC-cccCc-ccccCCCcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEE
Confidence 456777775321111 00111 13444456799999998865443 4999999999999999
Q ss_pred EECC
Q 015599 131 ADSV 134 (404)
Q Consensus 131 ~nn~ 134 (404)
+++.
T Consensus 99 v~~~ 102 (157)
T cd04821 99 VHET 102 (157)
T ss_pred EeCC
Confidence 9764
No 31
>cd03023 DsbA_Com1_like DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC motif, assumed to be imbedded in a DsbA-like structure. Its homology to DsbA suggests that the protein is a protein disulfide oxidoreductase. The role of such a protein in pathogenesis is unknown.
Probab=95.29 E-value=0.037 Score=47.78 Aligned_cols=82 Identities=18% Similarity=0.302 Sum_probs=55.0
Q ss_pred hhhHHHHHHhhhcCccchhhhHHHHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEc
Q 015599 309 VWWDYVTDFHIRCSMKEKRYSKECAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVIN 388 (404)
Q Consensus 309 ~WW~Yv~~f~~~C~~~~~~y~~~C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN 388 (404)
.+|+|....-..= ...+..=-..+++++++|..++++|+.+.. ....++++...-.. .+|...||++||
T Consensus 68 ~~~~~~~~lf~~~----~~~~~~~l~~~a~~~gl~~~~~~~~~~~~~---~~~~~~~~~~~~~~----~gi~gtPt~~v~ 136 (154)
T cd03023 68 KYLEFHNALMATR----GRLNEESLLRIAKKAGLDEAKLKKDMDDPE---IEATIDKNRQLARA----LGITGTPAFIIG 136 (154)
T ss_pred HHHHHHHHHHhcC----CCCCHHHHHHHHHHcCCCHHHHHHHhhChH---HHHHHHHHHHHHHH----cCCCcCCeEEEC
Confidence 6888877653321 112233355678899999999999986532 23455555433222 358899999999
Q ss_pred CeeeeccCCcccc
Q 015599 389 DVQYRGLLFNEQL 401 (404)
Q Consensus 389 ~~~yrG~l~~~~v 401 (404)
|+.+.|..+.+.+
T Consensus 137 g~~~~G~~~~~~l 149 (154)
T cd03023 137 DTVIPGAVPADTL 149 (154)
T ss_pred CEEecCCCCHHHH
Confidence 9999998876654
No 32
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=86.00 E-value=9.5 Score=33.06 Aligned_cols=80 Identities=18% Similarity=0.266 Sum_probs=47.1
Q ss_pred hhhHHHHHHhhhcCccchhhhHHHHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEc
Q 015599 309 VWWDYVTDFHIRCSMKEKRYSKECAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVIN 388 (404)
Q Consensus 309 ~WW~Yv~~f~~~C~~~~~~y~~~C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN 388 (404)
.||.+...+...-. ... .. .++..+-+.+..++++|+.+.. . ...++++...-.. .+|..-||++||
T Consensus 77 ~~~~~~~~~~~~~~---~~~-~~--~~i~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~----~~i~~tPt~~in 143 (162)
T PF13462_consen 77 YFWFFHELLFSQQE---NFE-NK--KDIAANAGGSNEQFNKCLNSDE--I-KAQLEADSQLARQ----LGITGTPTFFIN 143 (162)
T ss_dssp HHHHHHHHHHHHCH---STS-SH--HHHHHHTTSHHHHHHHHHTSHH--H-HHHHHHHHHHHHH----HT-SSSSEEEET
T ss_pred HHHHHHHHHHHhhh---ccc-hh--HHHHHHcCCCHHHHHHHhhchH--H-HHHHHHHHHHHHH----cCCccccEEEEC
Confidence 68877775444322 111 12 5555555566888999985432 1 2233333222212 347889999999
Q ss_pred CeeeeccCCcccc
Q 015599 389 DVQYRGLLFNEQL 401 (404)
Q Consensus 389 ~~~yrG~l~~~~v 401 (404)
|+.+.|..+.+.+
T Consensus 144 G~~~~~~~~~~~l 156 (162)
T PF13462_consen 144 GKYVVGPYTIEEL 156 (162)
T ss_dssp TCEEETTTSHHHH
T ss_pred CEEeCCCCCHHHH
Confidence 9999988776654
No 33
>cd03022 DsbA_HCCA_Iso DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1,2-dihydroxynapthalene by a dioxygenase, into cis-o-hydroxybenzylidenepyruvate (cHBPA). This is the fourth reaction in a six-step pathway that converts napthalene into salicylate. HCCA isomerase is unique to bacteria that degrade polycyclic aromatic compounds. It is closely related to the eukaryotic protein, GSH transferase kappa (GSTK).
Probab=83.87 E-value=1.2 Score=40.17 Aligned_cols=60 Identities=20% Similarity=0.291 Sum_probs=41.4
Q ss_pred HHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcCeeeeccCCcc
Q 015599 333 AEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVINDVQYRGLLFNE 399 (404)
Q Consensus 333 ~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~~~yrG~l~~~ 399 (404)
-.++++++|+|..++++++.++. .+. .|+++...-.. .+|...|+++|||+.|.|.-.-+
T Consensus 126 l~~~a~~~Gld~~~~~~~~~~~~--~~~-~l~~~~~~a~~----~gi~gvPtfvv~g~~~~G~~~l~ 185 (192)
T cd03022 126 LAAVAAAAGLDADELLAAADDPA--VKA-ALRANTEEAIA----RGVFGVPTFVVDGEMFWGQDRLD 185 (192)
T ss_pred HHHHHHHcCCCHHHHHHHcCCHH--HHH-HHHHHHHHHHH----cCCCcCCeEEECCeeecccccHH
Confidence 45688899999999999986543 233 33433332212 34889999999999999875443
No 34
>cd03024 DsbA_FrnE DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=81.90 E-value=1.5 Score=40.02 Aligned_cols=64 Identities=13% Similarity=0.173 Sum_probs=42.9
Q ss_pred HHHHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcCe-eeeccCCccc
Q 015599 330 KECAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVINDV-QYRGLLFNEQ 400 (404)
Q Consensus 330 ~~C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~~-~yrG~l~~~~ 400 (404)
.+--.++++.+|+|..++.+|+.++.. .. .|+++...-.. .+|...||++|||. ...|....+.
T Consensus 131 ~~~l~~~a~~~Gld~~~~~~~~~~~~~--~~-~~~~~~~~a~~----~gv~G~Pt~vv~g~~~~~G~~~~~~ 195 (201)
T cd03024 131 RDVLVDLAEEAGLDAAEARAVLASDEY--AD-EVRADEARARQ----LGISGVPFFVFNGKYAVSGAQPPEV 195 (201)
T ss_pred HHHHHHHHHHcCCCHHHHHHHhcCccc--ch-HHHHHHHHHHH----CCCCcCCEEEECCeEeecCCCCHHH
Confidence 445677889999999999999876532 23 33443332222 34889999999976 4567665544
No 35
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=80.88 E-value=1.9 Score=38.29 Aligned_cols=60 Identities=10% Similarity=0.099 Sum_probs=41.7
Q ss_pred HHHHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcCeeeeccC
Q 015599 330 KECAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVINDVQYRGLL 396 (404)
Q Consensus 330 ~~C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~~~yrG~l 396 (404)
.+--.++++++++|..+++.|+.+.. .+..++.+...-.. .+|.--||++|||+.+-+-.
T Consensus 99 ~~~l~~~a~~~Gl~~~~~~~~~~s~~---~~~~i~~~~~~~~~----~gi~gTPt~iInG~~~~~~~ 158 (178)
T cd03019 99 PDDIRKIFLSQGVDKKKFDAAYNSFS---VKALVAKAEKLAKK----YKITGVPAFVVNGKYVVNPS 158 (178)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHhCHH---HHHHHHHHHHHHHH----cCCCCCCeEEECCEEEEChh
Confidence 34567788899999999999986442 22345554432212 35889999999999776644
No 36
>PRK10954 periplasmic protein disulfide isomerase I; Provisional
Probab=73.37 E-value=3.5 Score=38.34 Aligned_cols=75 Identities=8% Similarity=0.004 Sum_probs=46.9
Q ss_pred hhhHHHHHHhhhcCccchhhhHHHHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEc
Q 015599 309 VWWDYVTDFHIRCSMKEKRYSKECAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVIN 388 (404)
Q Consensus 309 ~WW~Yv~~f~~~C~~~~~~y~~~C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN 388 (404)
.||.+.+.+..+ . ...+..=-.+++...|+|.+++++|+.+.. ....++++.... .+.+|.--||++||
T Consensus 106 ~~~~lf~~i~~~---~-~~~~~~~L~~~a~~~Gld~~~f~~~l~s~~---~~~~v~~~~~~a----~~~gI~gtPtfiIn 174 (207)
T PRK10954 106 VTPPLFEGVQKT---Q-TIQSAADIRDVFIKAGVKGEDYDAAWNSFV---VKSLVAQQEKAA----ADLQLRGVPAMFVN 174 (207)
T ss_pred HHHHHHHHHHcc---C-CCCCHHHHHHHHHHcCCCHHHHHHHHhChH---HHHHHHHHHHHH----HHcCCCCCCEEEEC
Confidence 456666665332 1 123334456677889999999999986542 223444443322 12358899999999
Q ss_pred Ceeeec
Q 015599 389 DVQYRG 394 (404)
Q Consensus 389 ~~~yrG 394 (404)
|+...+
T Consensus 175 Gky~v~ 180 (207)
T PRK10954 175 GKYMVN 180 (207)
T ss_pred CEEEEc
Confidence 997654
No 37
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=68.59 E-value=3.6 Score=36.93 Aligned_cols=63 Identities=17% Similarity=0.242 Sum_probs=41.9
Q ss_pred HHHHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcCe-eeeccCCcc
Q 015599 330 KECAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVINDV-QYRGLLFNE 399 (404)
Q Consensus 330 ~~C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~~-~yrG~l~~~ 399 (404)
.+=-..++.++|+|.+++.+-+.++. ....++++....... +|.-.|+++|||+ .+.|.-..+
T Consensus 123 ~~vl~~~~~~~Gld~~~~~~~~~~~~---~~~~~~~~~~~a~~~----gv~GvP~~vv~g~~~~~G~~~~~ 186 (193)
T PF01323_consen 123 PDVLAEIAEEAGLDPDEFDAALDSPE---VKAALEEDTAEARQL----GVFGVPTFVVNGKYRFFGADRLD 186 (193)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHTSHH---HHHHHHHHHHHHHHT----TCSSSSEEEETTTEEEESCSSHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHhcchH---HHHHHHHHHHHHHHc----CCcccCEEEECCEEEEECCCCHH
Confidence 34467788999999999988876542 233455554433333 4789999999999 888876543
No 38
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=61.66 E-value=9.1 Score=42.53 Aligned_cols=66 Identities=20% Similarity=0.254 Sum_probs=44.5
Q ss_pred CCCCceEEEEEecCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCCHHHHHHHHHHcCCcEEEEEECC
Q 015599 66 DYGGFMVGSVIYPDKGASGCQPFEGDKPFKSKFPRPTVLLLDRGECYFALKVWHGQQAGAAAVLVADSV 134 (404)
Q Consensus 66 ~~~~~l~G~lv~~~~~~~gC~~~~~~~~~~~~~~~g~IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~ 134 (404)
...++.+|.+||.- ...=..+..-.. .+-..+|+|+|++-|.-.+..|+.||+++||.+||||.+.
T Consensus 153 s~~g~~~~~~Vy~N--~~~~~d~~~l~~-~~i~~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~ 218 (702)
T KOG2195|consen 153 SPSGSVTGELVYAN--YGRIEDFYKLED-LGINLSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDP 218 (702)
T ss_pred CcCCCccceEEEEe--cCchhhhhHhhc-CcccccCceEEEEccccchhhhHhhHHHhhcCcEEEeecc
Confidence 34467888888842 111111110000 0112369999999999999999999999999999999754
No 39
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=61.19 E-value=5 Score=33.18 Aligned_cols=27 Identities=44% Similarity=0.386 Sum_probs=14.3
Q ss_pred hhcchhhHHHHHHHHHHHHhcccceeeE
Q 015599 9 MASSLSKKLTALLLILTVVFSSSVSARF 36 (404)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 36 (404)
|+|.. .+|++++|++++|.++-++|+=
T Consensus 1 MaSK~-~llL~l~LA~lLlisSevaa~~ 27 (95)
T PF07172_consen 1 MASKA-FLLLGLLLAALLLISSEVAARE 27 (95)
T ss_pred CchhH-HHHHHHHHHHHHHHHhhhhhHH
Confidence 56333 3666666666555554445543
No 40
>COG1786 Swiveling domain associated with predicted aconitase [Energy production and conversion]
Probab=59.71 E-value=76 Score=27.70 Aligned_cols=74 Identities=23% Similarity=0.324 Sum_probs=48.8
Q ss_pred CCCCCCeEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEECCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHH
Q 015599 96 SKFPRPTVLLLD--RGECYFALKVWHGQQAG-AAAVLVADSVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSL 172 (404)
Q Consensus 96 ~~~~~g~IvLV~--RG~CsF~~Kv~nAQ~aG-A~avII~nn~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L 172 (404)
.++..|+|+++. ||.|.=.-=.+.+.+.| |=++||. .+.+++++.+.- --.||.+-... .+
T Consensus 46 G~~l~Gkilv~P~grGStvGSyVl~~l~~~G~AP~aIv~-~e~EpIla~Gai-----------~a~iPlv~~~~----e~ 109 (131)
T COG1786 46 GESLTGKILVFPGGRGSTVGSYVLYELAKNGRAPAAIVN-EEAEPILAVGAI-----------LAGIPLVDGVD----EF 109 (131)
T ss_pred cccccceEEEeeCCCCccccHHHHHHHHHcCCCchhhhh-cCCcceeeehhh-----------hcCCceEeccH----HH
Confidence 344469999987 78898777788888888 5566664 445766655421 12577765443 56
Q ss_pred HHHHhcCCEEEEE
Q 015599 173 KEALKKGEEVVIK 185 (404)
Q Consensus 173 ~~~l~~g~~V~v~ 185 (404)
.+.++.+..|.+.
T Consensus 110 ~~~l~~g~~v~v~ 122 (131)
T COG1786 110 FEELKTGDRVRVN 122 (131)
T ss_pred HHHhccCCEEEEc
Confidence 6777777666554
No 41
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=48.14 E-value=1.1e+02 Score=31.63 Aligned_cols=72 Identities=21% Similarity=0.154 Sum_probs=46.6
Q ss_pred CCeEEEEecCCCCHHHHH--HHHHHcCCcEEEEEECCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHH
Q 015599 100 RPTVLLLDRGECYFALKV--WHGQQAGAAAVLVADSVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEA 175 (404)
Q Consensus 100 ~g~IvLV~RG~CsF~~Kv--~nAQ~aGA~avII~nn~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~ 175 (404)
.|.+++.+|-+--...|. ..|.++||.|+|+-.+.+..+++-+.-+-. .......||++.+...++..++.+
T Consensus 89 ~Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rriV~~Gd~gy~----~~s~PtPIPva~v~en~~~y~~~~ 162 (486)
T COG4882 89 GGRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRRIVTGGDWGYS----VSSSPTPIPVAVVPENYSRYAEEA 162 (486)
T ss_pred CCeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCceeEEeccccccc----CCCCCCCcceEEeccCcchhhccc
Confidence 478888777555444443 378899999999987655444443311110 111356799999999999877644
No 42
>cd03025 DsbA_FrnE_like DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=39.85 E-value=28 Score=31.20 Aligned_cols=53 Identities=23% Similarity=0.336 Sum_probs=35.3
Q ss_pred HHHHHHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcCee
Q 015599 332 CAEEVMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVINDVQ 391 (404)
Q Consensus 332 C~~~v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~~~ 391 (404)
=-..+++++|+|..++..++.++.. + ..|+++...-.. .+|...||++|++..
T Consensus 127 ~l~~ia~~~Gld~~~~~~~~~s~~~--~-~~l~~~~~~a~~----~gv~g~Ptfvv~~~~ 179 (193)
T cd03025 127 VLRELAIELGLDVEEFLEDFQSDEA--K-QAIQEDQKLARE----LGINGFPTLVLEDDN 179 (193)
T ss_pred HHHHHHHHcCCCHHHHHHHHcChHH--H-HHHHHHHHHHHH----cCCCccCEEEEEeCC
Confidence 4566788899999999999865532 3 344444332222 348899999988763
No 43
>PRK03955 hypothetical protein; Reviewed
Probab=37.04 E-value=2.9e+02 Score=24.21 Aligned_cols=68 Identities=21% Similarity=0.340 Sum_probs=42.0
Q ss_pred CCeEEEEe--cCCCCHHHHHHHHHHcC-CcEEEEEECCCCCccccCCCCCCcccCCCccccCceEEEEeHHHHHHHHHHH
Q 015599 100 RPTVLLLD--RGECYFALKVWHGQQAG-AAAVLVADSVDEPLITMDSPEESTDANGYVEKIGIPSALIDRAFGLSLKEAL 176 (404)
Q Consensus 100 ~g~IvLV~--RG~CsF~~Kv~nAQ~aG-A~avII~nn~~~~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG~~L~~~l 176 (404)
.|||++.. ||.|.=.-=.+.+.+.| |=++||... .+++.+.+.- --.||++.-. + .+.|
T Consensus 50 ~gkIlv~p~~kGSt~gs~vl~~l~~~g~aP~aiI~~~-~~~ils~GaI-----------vAgIP~V~~~--~----~~~l 111 (131)
T PRK03955 50 KGKILVFPHGKGSTVGSYVIYQLAKNGTAPKAIINLE-AEPIVATGAI-----------ISGIPLVDKV--D----ISKL 111 (131)
T ss_pred CCEEEEEeCCCcccchHHHHHHHHHcCCCceEEEEec-CCceeEeeee-----------ecCCceEccc--c----ceec
Confidence 59999887 78898655555555554 335666654 3544444321 1268888622 1 5678
Q ss_pred hcCCEEEEE
Q 015599 177 KKGEEVVIK 185 (404)
Q Consensus 177 ~~g~~V~v~ 185 (404)
+.|..|++.
T Consensus 112 ~~G~~V~Vd 120 (131)
T PRK03955 112 KDGDRVVVD 120 (131)
T ss_pred CCCCEEEEe
Confidence 888887765
No 44
>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=31.12 E-value=59 Score=32.20 Aligned_cols=68 Identities=19% Similarity=0.198 Sum_probs=42.3
Q ss_pred CHHHHHHHHHHcCCcEEEEEECCCCC------ccccCCCCCCcccCCCccccCceEEEEeHHHH-HHHHHHHhcCCEE
Q 015599 112 YFALKVWHGQQAGAAAVLVADSVDEP------LITMDSPEESTDANGYVEKIGIPSALIDRAFG-LSLKEALKKGEEV 182 (404)
Q Consensus 112 sF~~Kv~nAQ~aGA~avII~nn~~~~------l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~dG-~~L~~~l~~g~~V 182 (404)
+-.++++-|++|||.+|++-+..+.+ ...|.++.+- -.--..++||++.+-|.+- .......+.|-.+
T Consensus 16 ~~~~qa~~ae~aga~~v~~~~~~~~~~~~~~~v~R~~~~~~I---~~Ik~~V~iPVIGi~K~~~~~Ea~~L~eaGvDi 90 (283)
T cd04727 16 TNAEQARIAEEAGAVAVMALERVPADIRAAGGVARMADPKMI---KEIMDAVSIPVMAKVRIGHFVEAQILEALGVDM 90 (283)
T ss_pred CCHHHHHHHHHcCceEEeeeccCchhhhhcCCeeecCCHHHH---HHHHHhCCCCeEEeeehhHHHHHHHHHHcCCCE
Confidence 55789999999999999998765533 2334333220 0111247999999988763 3344444456443
No 45
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=28.89 E-value=25 Score=27.07 Aligned_cols=19 Identities=37% Similarity=0.469 Sum_probs=14.7
Q ss_pred CceEEeeEEEEcCee-eecc
Q 015599 377 GDVTILPTLVINDVQ-YRGL 395 (404)
Q Consensus 377 ~~v~~~Ptl~IN~~~-yrG~ 395 (404)
.+|.-.|+++|||+. |.|+
T Consensus 45 ygv~~vPalvIng~~~~~G~ 64 (76)
T PF13192_consen 45 YGVMSVPALVINGKVVFVGR 64 (76)
T ss_dssp TT-SSSSEEEETTEEEEESS
T ss_pred cCCCCCCEEEECCEEEEEec
Confidence 347889999999984 8884
No 46
>KOG3160 consensus Gamma-interferon inducible lysosomal thiol reductase [Posttranslational modification, protein turnover, chaperones]
Probab=28.21 E-value=70 Score=30.49 Aligned_cols=57 Identities=18% Similarity=0.206 Sum_probs=35.2
Q ss_pred HHHHcCCChhhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcCeeeeccCC
Q 015599 336 VMKSLDLPIEKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVINDVQYRGLLF 397 (404)
Q Consensus 336 v~~~l~id~~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~~~yrG~l~ 397 (404)
-++..+++..+++.|..+. -|.--++++.. ... .....+-++|.+.|||..++-.+.
T Consensus 140 C~~~~~~~~~~i~~Ca~s~--~g~~L~~~~~~--~T~-~~~p~~~~VPwi~vNg~~~~~~~~ 196 (220)
T KOG3160|consen 140 CLEKYGLNEKKIRECANSR--LGAKLLLKYAQ--ETA-ALAPPHPWVPWILVNGQPLQDAEQ 196 (220)
T ss_pred HHhhcCCCHHHHHHHhcCc--hHHHHHHHHHH--hhc-ccCCCCCCcCeEEECCcchHHHHH
Confidence 3445577799999997432 12222232222 222 234679999999999998875443
No 47
>TIGR00411 redox_disulf_1 small redox-active disulfide protein 1. This protein is homologous to a family of proteins that includes thioredoxins, glutaredoxins, protein-disulfide isomerases, and others, some of which have several such domains. The sequence of this protein at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although its overall sequence seems closer to thioredoxins. It is suggested to be a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.
Probab=28.11 E-value=24 Score=26.73 Aligned_cols=24 Identities=29% Similarity=0.534 Sum_probs=18.0
Q ss_pred ceEEeeEEEEcCe-eeeccCCcccc
Q 015599 378 DVTILPTLVINDV-QYRGLLFNEQL 401 (404)
Q Consensus 378 ~v~~~Ptl~IN~~-~yrG~l~~~~v 401 (404)
+|...|+++|||. .+.|..+.+.+
T Consensus 50 ~v~~vPt~~~~g~~~~~G~~~~~~l 74 (82)
T TIGR00411 50 GIMAVPAIVINGDVEFIGAPTKEEL 74 (82)
T ss_pred CCccCCEEEECCEEEEecCCCHHHH
Confidence 3678899999997 66687666544
No 48
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=26.36 E-value=36 Score=27.33 Aligned_cols=26 Identities=15% Similarity=0.253 Sum_probs=19.2
Q ss_pred CceEEeeEEEEcCe-eeeccCCccccc
Q 015599 377 GDVTILPTLVINDV-QYRGLLFNEQLV 402 (404)
Q Consensus 377 ~~v~~~Ptl~IN~~-~yrG~l~~~~v~ 402 (404)
.+|...||++|||. .++|+.+.+.|+
T Consensus 61 ~~V~~vPt~vidG~~~~~G~~~~~e~~ 87 (89)
T cd03026 61 RGIMSVPAIFLNGELFGFGRMTLEEIL 87 (89)
T ss_pred cCCccCCEEEECCEEEEeCCCCHHHHh
Confidence 44789999999975 678876655554
No 49
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.20 E-value=26 Score=34.92 Aligned_cols=34 Identities=9% Similarity=-0.077 Sum_probs=30.0
Q ss_pred EEEEecCCCCHHHHHHHHHHcCCcEEEEEECCCC
Q 015599 103 VLLLDRGECYFALKVWHGQQAGAAAVLVADSVDE 136 (404)
Q Consensus 103 IvLV~RG~CsF~~Kv~nAQ~aGA~avII~nn~~~ 136 (404)
+.+++||+|+..+|.+.+++.|-+|||..++...
T Consensus 149 ~~~~~rgn~t~~d~~rer~r~~fkgvi~Gs~r~~ 182 (374)
T COG5540 149 DRCNRRGNETEEDPTRERRRTRFKGVIRGSERNG 182 (374)
T ss_pred HHHHHccCccccCccccchhccccceeeccccCC
Confidence 3467899999999999999999999999987653
No 50
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=25.20 E-value=58 Score=24.24 Aligned_cols=21 Identities=24% Similarity=0.491 Sum_probs=14.9
Q ss_pred HhcccceeeEEeecCeEEEEcCCCccee
Q 015599 27 VFSSSVSARFVVEKSSIRVLHPQSLRSK 54 (404)
Q Consensus 27 ~~~~~~~~~~~ve~~~l~V~~P~~l~~~ 54 (404)
+....+.|.++| +.|.++++.
T Consensus 13 ~~~~~a~AQWvV-------~DP~NlAQ~ 33 (55)
T PF13605_consen 13 LLAGPARAQWVV-------TDPGNLAQN 33 (55)
T ss_pred hcCCcceeEEEE-------eCchHHHHH
Confidence 446778999987 667776653
No 51
>cd03021 DsbA_GSTK DsbA family, Glutathione (GSH) S-transferase Kappa (GSTK) subfamily; GSTK is a member of the GST family of enzymes which catalyzes the transfer of the thiol of GSH to electrophilic substrates. It is specifically located in the mitochondria and peroxisomes, unlike other members of the canonical GST family, which are mainly cytosolic. The biological substrates of GSTK are not yet known. It is presumed to have a protective role during respiration when large amounts of reactive oxygen species are generated. GSTK has the same general fold as DsbA, consisting of a thioredoxin domain interrupted by an alpha-helical domain and its biological unit is a homodimer. GSTK is closely related to the bacterial enzyme, 2-hydroxychromene-2-carboxylate (HCCA) isomerase. It shows little sequence similarity to the other members of the GST family.
Probab=22.83 E-value=60 Score=29.97 Aligned_cols=55 Identities=20% Similarity=0.245 Sum_probs=31.0
Q ss_pred HHHHHHcCCChhhhcccc---CCccccccchHHHHHHHHHhcCCCCCceEEeeEEEEcC-----eeeecc
Q 015599 334 EEVMKSLDLPIEKIRKCI---GDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLVIND-----VQYRGL 395 (404)
Q Consensus 334 ~~v~~~l~id~~~i~~C~---~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~IN~-----~~yrG~ 395 (404)
..++..+|+|.+..+.-. .++ .....+-+....++ . .+|.-.|+++||+ ..|-|+
T Consensus 136 ~~~a~~~Gld~~~~~~~l~~~~~~--~~~~~l~~~~~~A~-~----~Gv~GVP~fvv~~~~~~~e~fwG~ 198 (209)
T cd03021 136 SVAADKLGGSAEQAEKLLKAASTP--EVKNRLKENTDEAL-K----YGAFGLPWIVVTNDKGKTEMFFGS 198 (209)
T ss_pred HHHHHHcCCCcccHHHHHHHccCH--HHHHHHHHHHHHHH-H----cCCCCCCEEEEEcCCCCccceecC
Confidence 467788999855544433 121 11233333322222 2 3489999999974 577774
No 52
>TIGR00343 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1. This protein had been believed to be a singlet oxygen resistance protein. Subsequent work showed that it is a protein of pyridoxine (vitamin B6) biosynthesis, and that pyridoxine quenches the highly toxic singlet form of oxygen produced by light in the presence of certain chemicals.
Probab=21.48 E-value=57 Score=32.31 Aligned_cols=54 Identities=20% Similarity=0.223 Sum_probs=35.7
Q ss_pred CHHHHHHHHHHcCCcEEEEEECCCC------CccccCCCCCCcccCCCccccCceEEEEeHHH
Q 015599 112 YFALKVWHGQQAGAAAVLVADSVDE------PLITMDSPEESTDANGYVEKIGIPSALIDRAF 168 (404)
Q Consensus 112 sF~~Kv~nAQ~aGA~avII~nn~~~------~l~~m~~~~d~~~~~~~~~~i~IPsv~Is~~d 168 (404)
+-.++++-|++|||.||+.-...+. ....|..|.+- -.--..++||++.+-+..
T Consensus 18 ~~~eqa~iae~aga~avm~le~~p~d~r~~ggv~R~~~p~~I---~~I~~~V~iPVig~~kig 77 (287)
T TIGR00343 18 VNPEQAKIAEEAGAVAVMALERVPADIRASGGVARMSDPKMI---KEIMDAVSIPVMAKVRIG 77 (287)
T ss_pred CCHHHHHHHHHcCceEEEeeccCchhhHhcCCeeecCCHHHH---HHHHHhCCCCEEEEeecc
Confidence 5578999999999999999765543 33345443320 011135799999987765
No 53
>TIGR02196 GlrX_YruB Glutaredoxin-like protein, YruB-family. This glutaredoxin-like protein family contains the conserved CxxC motif and includes the Clostridium pasteurianum protein YruB which has been cloned from a rubredoxin operon. Somewhat related to NrdH, it is unknown whether this protein actually interacts with glutathione/glutathione reducatase, or, like NrdH, some other reductant system.
Probab=21.46 E-value=84 Score=22.63 Aligned_cols=22 Identities=27% Similarity=0.307 Sum_probs=16.6
Q ss_pred eEEeeEEEEcCeeeeccCCcccc
Q 015599 379 VTILPTLVINDVQYRGLLFNEQL 401 (404)
Q Consensus 379 v~~~Ptl~IN~~~yrG~l~~~~v 401 (404)
+..+|+++++|....| .+++.+
T Consensus 48 ~~~vP~~~~~~~~~~g-~~~~~i 69 (74)
T TIGR02196 48 QRGVPVIVIGHKIIVG-FDPEKL 69 (74)
T ss_pred CCcccEEEECCEEEee-CCHHHH
Confidence 4578999999998877 455443
No 54
>COG1651 DsbG Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=20.85 E-value=92 Score=29.21 Aligned_cols=84 Identities=17% Similarity=0.235 Sum_probs=43.8
Q ss_pred hhhHHHHH-HhhhcCccchhhhHHHHHHHHHHcCCCh-hhhccccCCccccccchHHHHHHHHHhcCCCCCceEEeeEEE
Q 015599 309 VWWDYVTD-FHIRCSMKEKRYSKECAEEVMKSLDLPI-EKIRKCIGDPEADVENEVLKTEQEFQVGRGSRGDVTILPTLV 386 (404)
Q Consensus 309 ~WW~Yv~~-f~~~C~~~~~~y~~~C~~~v~~~l~id~-~~i~~C~~~~~~d~~n~iL~~e~~~q~~~~~~~~v~~~Ptl~ 386 (404)
.+|.|.+. |+.+-.. ......|..+..+...-.. .+...|.. + ..-+.+++..+..=.. .+|..=||++
T Consensus 150 ~y~~~~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~i~~~~~~a~~----~gv~gTPt~~ 220 (244)
T COG1651 150 RYWAFHDALFGSQAEA--WAASILCAKDLAKADLAALDEGKKAKLN-Q--KACDALIAKNYKLAQQ----LGVNGTPTFI 220 (244)
T ss_pred hHHHHHHHHhhccccc--hhhhhhhhhhhhhhhHHHHHhhhhhccC-h--HHHHHHHHHHHHHHHh----cCCCcCCeEE
Confidence 36666665 3332221 1122445544443332222 56666643 1 1123344444332212 3478999999
Q ss_pred EcCeeeeccCCcccc
Q 015599 387 INDVQYRGLLFNEQL 401 (404)
Q Consensus 387 IN~~~yrG~l~~~~v 401 (404)
|||..|.|.+..+.+
T Consensus 221 v~~~~~~g~~~~~~l 235 (244)
T COG1651 221 VNGKLVPGLPDLDEL 235 (244)
T ss_pred ECCeeecCCCCHHHH
Confidence 999999999875543
No 55
>PF10419 TFIIIC_sub6: TFIIIC subunit; InterPro: IPR019481 This conserved domain is found in a family of proteins that function as subunits of transcription factor IIIC (TFIIIC) []. TFIIIC in yeast and humans is required for transcription of tRNA and 5 S RNA genes by RNA polymerase III. The yeast proteins in this entry are fused to phosphoglycerate mutase domain.
Probab=20.38 E-value=75 Score=21.31 Aligned_cols=16 Identities=25% Similarity=0.310 Sum_probs=13.8
Q ss_pred eeEEEEcCeeeeccCC
Q 015599 382 LPTLVINDVQYRGLLF 397 (404)
Q Consensus 382 ~Ptl~IN~~~yrG~l~ 397 (404)
-|-+.||+..|+|.-+
T Consensus 10 ~Pil~i~~~vf~G~~~ 25 (35)
T PF10419_consen 10 NPILQIGNQVFEGEWE 25 (35)
T ss_pred CCEEEECCEEEEEEEh
Confidence 4899999999999754
Done!