Query 039461
Match_columns 76
No_of_seqs 152 out of 1036
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 09:53:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039461.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039461hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd05381 SCP_PR-1_like SCP_PR-1 100.0 1.3E-28 2.9E-33 144.8 6.6 74 3-76 62-136 (136)
2 cd05384 SCP_PRY1_like SCP_PRY1 99.9 6.3E-25 1.4E-29 128.1 6.6 68 4-72 62-129 (129)
3 cd05382 SCP_GAPR-1_like SCP_GA 99.9 1.7E-23 3.7E-28 122.1 8.2 67 2-70 66-132 (132)
4 KOG3017 Defense-related protei 99.9 1.3E-23 2.9E-28 132.0 6.8 74 3-76 116-198 (225)
5 cd05383 SCP_CRISP SCP_CRISP: S 99.9 2.1E-23 4.7E-28 123.1 5.0 65 3-67 72-138 (138)
6 cd05385 SCP_GLIPR-1_like SCP_G 99.9 6.2E-23 1.3E-27 121.8 5.0 64 3-67 77-144 (144)
7 smart00198 SCP SCP / Tpx-1 / A 99.9 3.3E-22 7.2E-27 118.1 3.7 65 3-67 76-144 (144)
8 cd05559 SCP_HrTT-1 SCP_HrTT-1: 99.8 1.7E-21 3.6E-26 114.9 4.1 63 3-65 67-136 (136)
9 cd00168 SCP SCP: SCP-like extr 99.8 3.4E-19 7.3E-24 102.9 5.7 61 3-65 62-122 (122)
10 cd05380 SCP_euk SCP_euk: SCP-l 99.8 3.6E-19 7.8E-24 104.4 2.5 62 4-65 79-144 (144)
11 PF00188 CAP: Cysteine-rich se 99.2 7.2E-12 1.6E-16 69.7 3.3 56 9-64 65-124 (124)
12 TIGR02909 spore_YkwD uncharact 97.6 0.00021 4.6E-09 41.5 4.6 30 31-61 93-122 (127)
13 cd05379 SCP_bacterial SCP_bact 97.5 0.00022 4.7E-09 40.2 4.0 45 4-64 77-121 (122)
14 KOG0286 G-protein beta subunit 83.5 1.9 4E-05 29.2 3.4 35 35-71 78-112 (343)
15 PF09907 DUF2136: Uncharacteri 35.7 23 0.00051 18.9 1.1 20 5-24 2-21 (76)
16 PHA00684 hypothetical protein 34.1 14 0.00031 21.8 0.1 12 42-53 79-90 (128)
17 PF08693 SKG6: Transmembrane a 32.5 46 0.001 15.7 1.7 12 40-51 8-19 (40)
18 PF14555 UBA_4: UBA-like domai 22.2 1E+02 0.0022 14.1 2.1 15 2-16 26-40 (43)
19 PF12387 Peptidase_C74: Pestiv 22.2 59 0.0013 20.5 1.3 18 6-23 129-146 (200)
20 PF10816 DUF2760: Domain of un 20.8 40 0.00088 19.9 0.4 10 67-76 82-91 (125)
No 1
>cd05381 SCP_PR-1_like SCP_PR-1_like: SCP-like extracellular protein domain, PR-1 like subfamily. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in cell wall loosening. It also includes CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases.
Probab=99.95 E-value=1.3e-28 Score=144.79 Aligned_cols=74 Identities=59% Similarity=1.282 Sum_probs=66.7
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcCce-eccceeeeeccccEEEEEEEEccCCCcEEEEEEecCCCCCCCCCCC
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVGGE-CRHYTQVVWRNSVRLGCARVKCNNNRGTFVICSYDPPGNVAGKRPY 76 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~-~~hftq~vw~~t~~vGCa~~~c~~~~~~~~VC~Y~p~GN~~g~~~Y 76 (76)
.++.++|+.|++|.++|++..+.+..+. ++|||||||++|++||||++.|..++..++||+|+|+||+.|++||
T Consensus 62 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~c~~~~~~~vvC~Y~p~gn~~g~~~Y 136 (136)
T cd05381 62 WSAADAVASWVSEKKYYDYDSNTCAAGKMCGHYTQVVWRNTTRVGCARVTCDNGGGVFIICNYDPPGNYIGQRPY 136 (136)
T ss_pred CCHHHHHHHHHhccccCCCCCCCcCCCccchHHHHHHHHhcCEeceEEEEeCCCCcEEEEEEeeCCCCCCCCCCC
Confidence 4688999999999999999888766544 9999999999999999999999654578999999999999999998
No 2
>cd05384 SCP_PRY1_like SCP_PRY1_like: SCP-like extracellular protein domain, PRY1-like sub-family restricted to fungi. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases. PRY1 is a yeast protein that is up-regulated in core ESCRT mutants. This PRY1-like group also contains fruiting body proteins SC7/14 from Schizophyllum commune.
Probab=99.92 E-value=6.3e-25 Score=128.13 Aligned_cols=68 Identities=40% Similarity=0.925 Sum_probs=58.7
Q ss_pred CHHHHHHHHHhhcCCCCCCCCCCcCceeccceeeeeccccEEEEEEEEccCCCcEEEEEEecCCCCCCC
Q 039461 4 TGTAAVKLWVDERPKYNYNSNTCVGGECRHYTQVVWRNSVRLGCARVKCNNNRGTFVICSYDPPGNVAG 72 (76)
Q Consensus 4 ~~~~~v~~W~~e~~~y~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~c~~~~~~~~VC~Y~p~GN~~g 72 (76)
+++++++.|++|.++|++..+.+ ...++|||||||++|++||||++.|......++||+|+|+||+.|
T Consensus 62 ~~~~~v~~W~~e~~~y~~~~~~~-~~~~~h~tqmvw~~t~~vGCa~~~c~~~~~~~~vC~Y~p~Gn~~g 129 (129)
T cd05384 62 SGTSAVDAWYDEIEDYDYSNPGF-SEATGHFTQLVWKSTTQVGCAYKDCGGAWGWYIVCEYDPAGNVIG 129 (129)
T ss_pred CHHHHHHHHHhhhhhCCCCCCCC-CCcccchhhhhhhccceeeeEEEEeCCCCeEEEEEEEECCCCCCc
Confidence 67899999999999999987543 234999999999999999999999954346889999999999875
No 3
>cd05382 SCP_GAPR-1_like SCP_GAPR-1_like: SCP-like extracellular protein domain, golgi-associated plant pathogenesis related protein (GAPR)-like sub-family. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, which combine SCP with a C-terminal cysteine rich domain, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases. The human GAPR-1 protein has been reported to dimerize, and such a dimer may form an active site containing a catalytic triad. GAPR-1 and GLIPR-2 appear to be synonyms.
Probab=99.90 E-value=1.7e-23 Score=122.10 Aligned_cols=67 Identities=40% Similarity=0.756 Sum_probs=57.6
Q ss_pred CCCHHHHHHHHHhhcCCCCCCCCCCcCceeccceeeeeccccEEEEEEEEccCCCcEEEEEEecCCCCC
Q 039461 2 DLTGTAAVKLWVDERPKYNYNSNTCVGGECRHYTQVVWRNSVRLGCARVKCNNNRGTFVICSYDPPGNV 70 (76)
Q Consensus 2 ~~~~~~~v~~W~~e~~~y~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~c~~~~~~~~VC~Y~p~GN~ 70 (76)
+.+++++|+.|++|..+|++..+... ..++|||||||++|++||||++.|.. +.+++||+|+|+||+
T Consensus 66 ~~~~~~~v~~W~~e~~~y~~~~~~~~-~~~gh~tqmvw~~t~~vGCa~~~~~~-~~~~~vC~Y~p~Gn~ 132 (132)
T cd05382 66 DLTGEEAVDSWYNEIKKYDFNKPGFS-SKTGHFTQVVWKSSTELGVGVAKSKK-GCVYVVARYRPAGNV 132 (132)
T ss_pred CCCHHHHHHHHHhccccCCCCCCCCC-CCCCCeEEeEecCCCceeeEEEEcCC-CCEEEEEEEeCCCCC
Confidence 45789999999999999998755432 34999999999999999999999943 568999999999995
No 4
>KOG3017 consensus Defense-related protein containing SCP domain [Function unknown]
Probab=99.89 E-value=1.3e-23 Score=132.00 Aligned_cols=74 Identities=46% Similarity=0.979 Sum_probs=63.9
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcC---ce-eccceeeeeccccEEEEEEEEccCCC----cEEEEEEecCCCCCCC-C
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVG---GE-CRHYTQVVWRNSVRLGCARVKCNNNR----GTFVICSYDPPGNVAG-K 73 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~---~~-~~hftq~vw~~t~~vGCa~~~c~~~~----~~~~VC~Y~p~GN~~g-~ 73 (76)
.+...+++.|+.|...|++.++.+.. +. ++|||||||++|++||||++.|..+. .+++||+|+|+||..+ +
T Consensus 116 ~~~~~a~~~w~~e~~~~~~~~~~~~~~~~~~~~gHyTQ~vw~~s~~vGCgv~~c~~~~~~~~~~~~vC~Y~p~g~~~~~~ 195 (225)
T KOG3017|consen 116 TSGALAVEAWESEFQEYDWSSNTCSSADFGEGIGHYTQMVWAKSTKVGCGVVRCGNGSNGYNTVAVVCNYDPPGNNINGE 195 (225)
T ss_pred ccHHHHHHHHHHHHHHccCcccccCcccCCCcceEEEEEEEeCCceeceeeccCCCCCCCcceEEEEEEeecCCCCcCCC
Confidence 56778999999999999999988864 34 99999999999999999999997664 7899999999965555 5
Q ss_pred CCC
Q 039461 74 RPY 76 (76)
Q Consensus 74 ~~Y 76 (76)
.||
T Consensus 196 ~~y 198 (225)
T KOG3017|consen 196 IPY 198 (225)
T ss_pred CcC
Confidence 766
No 5
>cd05383 SCP_CRISP SCP_CRISP: SCP-like extracellular protein domain, CRISP-like sub-family. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, which combine SCP with a C-terminal cysteine rich domain, and allergen 5 from vespid venom. Involvement of CRISP in response to pathogens, fertilization, and sperm maturation have been proposed. One member, Tex31 from the venom duct of Conus textile, has been shown to possess proteolytic activity sensitive to serine protease inhibitors. SCP has also been proposed to be a Ca++ chelating serine protease. The Ca++-chelating function would fit with various signaling processes that members of this family, such as the CRISPs, are involved in, and is supported by sequence and structural evidence of a conserved pocket containing two histidines and a glutamate. It also may explain how helothermine, a toxic peptide secreted by the beaded lizard, blocks Ca++ t
Probab=99.89 E-value=2.1e-23 Score=123.10 Aligned_cols=65 Identities=32% Similarity=0.690 Sum_probs=55.8
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcCce-eccceeeeeccccEEEEEEEEccCC-CcEEEEEEecCC
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVGGE-CRHYTQVVWRNSVRLGCARVKCNNN-RGTFVICSYDPP 67 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~-~~hftq~vw~~t~~vGCa~~~c~~~-~~~~~VC~Y~p~ 67 (76)
.++.++|+.|++|..+|+++.+.+..+. ++|||||||++|++||||++.|..+ ..+++||+|+|+
T Consensus 72 ~~~~~av~~W~~e~~~y~~~~~~~~~~~~~~hftqmvw~~t~~vGCa~~~c~~~~~~~~~vC~Y~P~ 138 (138)
T cd05383 72 RSWSDVIQAWYDEYKDFKYGVGATPPGAVVGHYTQIVWYKSYLVGCAVAYCPNSKYKYFYVCHYCPA 138 (138)
T ss_pred CCHHHHHHHHHHHHHhCCCCCCCCCCCCchhhHHHHHHHhccccceEEEECCCCCcCEEEEEecCCC
Confidence 3578999999999999999877654444 9999999999999999999999543 268899999994
No 6
>cd05385 SCP_GLIPR-1_like SCP_GLIPR-1_like: SCP-like extracellular protein domain, glioma pathogenesis-related protein (GLIPR)-like sub-family. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases.
Probab=99.88 E-value=6.2e-23 Score=121.85 Aligned_cols=64 Identities=38% Similarity=0.864 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcCceeccceeeeeccccEEEEEEEEccCCC----cEEEEEEecCC
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVGGECRHYTQVVWRNSVRLGCARVKCNNNR----GTFVICSYDPP 67 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~c~~~~----~~~~VC~Y~p~ 67 (76)
+++.++|+.||+|.++|+|..+.+. ..++|||||||++|++||||++.|..++ ..+|||+|+|+
T Consensus 77 ~~~~~av~~W~~e~~~y~~~~~~~~-~~~ghftqmvw~~t~~vGCa~~~c~~~~~~~~~~~vVC~Y~p~ 144 (144)
T cd05385 77 FSPKNAVTSWYNEGKFYDFDTNSCS-RVCGHYTQVVWATSYKVGCAVAFCPNLGGIPNAAIFVCNYAPA 144 (144)
T ss_pred CCHHHHHHHHHHHHHhCCCCCCCCC-CcccCHHHHHHhhccccceEEEECCCCCCccccEEEEEeCCCC
Confidence 4678899999999999999877653 3599999999999999999999996532 47899999994
No 7
>smart00198 SCP SCP / Tpx-1 / Ag5 / PR-1 / Sc7 family of extracellular domains. Human glioma pathogenesis-related protein GliPR and the plant pathogenesis-related protein represent functional links between plant defense systems and human immune system. This family has no known function.
Probab=99.85 E-value=3.3e-22 Score=118.06 Aligned_cols=65 Identities=46% Similarity=0.965 Sum_probs=55.7
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcC-c-eeccceeeeeccccEEEEEEEEccCCC--cEEEEEEecCC
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVG-G-ECRHYTQVVWRNSVRLGCARVKCNNNR--GTFVICSYDPP 67 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~-~-~~~hftq~vw~~t~~vGCa~~~c~~~~--~~~~VC~Y~p~ 67 (76)
..++++|+.|++|.++|++..+.+.. + .++|||||||++|++||||++.|..++ .+++||+|+|+
T Consensus 76 ~~~~~av~~W~~e~~~y~~~~~~~~~~~~~~~hftqmvw~~s~~vGCa~~~c~~~~~~~~~~vC~Y~P~ 144 (144)
T smart00198 76 TYASAAVQLWYDEFQDYGYSSNTCKDTNGKIGHYTQVVWAKTYKVGCGVSNCPDGTKKKTVVVCNYDPP 144 (144)
T ss_pred hhHHHHHHHHHHHHHHcCCCCCccccCccchhHHHHHHHHhcCCcceEEEECCCCCcceEEEEEecCCC
Confidence 46788999999999999998877653 3 499999999999999999999995443 37999999994
No 8
>cd05559 SCP_HrTT-1 SCP_HrTT-1: SCP-like extracellular protein domain in HrTT-1, a tail-tip epidermis marker in ascidians. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases.
Probab=99.84 E-value=1.7e-21 Score=114.87 Aligned_cols=63 Identities=43% Similarity=0.973 Sum_probs=54.5
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcCce-eccceeeeeccccEEEEEEEEccCC------CcEEEEEEec
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVGGE-CRHYTQVVWRNSVRLGCARVKCNNN------RGTFVICSYD 65 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~-~~hftq~vw~~t~~vGCa~~~c~~~------~~~~~VC~Y~ 65 (76)
.++.++|+.|++|.++|++..+.+..+. ++|||||||++|++||||++.|... ...++||+|+
T Consensus 67 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~~~~hftqmvw~~t~~vGCa~~~c~~~~~~~~~~~~~~vC~Y~ 136 (136)
T cd05559 67 FDATKAVEDWNNEKLDYNYNTNTCAPNKMCGHYTQVVWANTFKIGCGSYFCETLEVLRWENATLLVCNYG 136 (136)
T ss_pred CCHHHHHHHHHHHHHhcCCCCCCCCCCCcccchHHHHHhccCccceEEEECCCCCCCCcccCEEEEecCC
Confidence 4688999999999999999887765554 9999999999999999999999542 2478999995
No 9
>cd00168 SCP SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in cell wall loosening. This family also includes CRISPs, mammalian cysteine-rich secretory proteins, which combine SCP with a C-terminal cysteine rich domain, and allergen 5 from vespid venom. Roles for CRISP, in response to pathogens, fertilization, and sperm maturation have been proposed. One member, Tex31 from the venom duct of Conus textile, has been shown to possess proteolytic activity sensitive to serine protease inhibitors. The human GAPR-1 protein has been reported to dimerize, and such a dimer may form an active site containing a catalytic triad. SCP has also been proposed to be a Ca++ chelating serine protease. The Ca++-chelating function would fit with various signaling processes that members of this family, such as
Probab=99.78 E-value=3.4e-19 Score=102.87 Aligned_cols=61 Identities=38% Similarity=0.877 Sum_probs=52.2
Q ss_pred CCHHHHHHHHHhhcCCCCCCCCCCcCceeccceeeeeccccEEEEEEEEccCCCcEEEEEEec
Q 039461 3 LTGTAAVKLWVDERPKYNYNSNTCVGGECRHYTQVVWRNSVRLGCARVKCNNNRGTFVICSYD 65 (76)
Q Consensus 3 ~~~~~~v~~W~~e~~~y~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~c~~~~~~~~VC~Y~ 65 (76)
.+++++++.|++|.++|+|..+.. ...++|||||||++|++||||++.|.. +..++||+|.
T Consensus 62 ~~~~~~v~~W~~e~~~y~~~~~~~-~~~~~h~~qmvw~~s~~vGca~~~~~~-~~~~~vC~Y~ 122 (122)
T cd00168 62 MTGPAAVQAWYNEIKNYNFGQPGF-SSGTGHYTQVVWKNTTKIGCGVAFCGS-NSYYVVCNYG 122 (122)
T ss_pred CCHHHHHHHHHHHHHhCCCCCCCC-CCCccchhhhhcccCCeeeeEEEEcCC-CCEEEEEeCc
Confidence 478899999999999999985543 234999999999999999999999943 5688999995
No 10
>cd05380 SCP_euk SCP_euk: SCP-like extracellular protein domain, as found mainly in eukaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases.
Probab=99.75 E-value=3.6e-19 Score=104.43 Aligned_cols=62 Identities=34% Similarity=0.743 Sum_probs=51.9
Q ss_pred CHHHHHHHHHhhcCCCCCCCC-CCcCc-eeccceeeeeccccEEEEEEEEccCC--CcEEEEEEec
Q 039461 4 TGTAAVKLWVDERPKYNYNSN-TCVGG-ECRHYTQVVWRNSVRLGCARVKCNNN--RGTFVICSYD 65 (76)
Q Consensus 4 ~~~~~v~~W~~e~~~y~~~~~-~~~~~-~~~hftq~vw~~t~~vGCa~~~c~~~--~~~~~VC~Y~ 65 (76)
.+.++|+.|++|..+|++... .+... .++|||||||++|++||||++.|... ...++||+|+
T Consensus 79 ~~~~~v~~W~~e~~~~~~~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~~~~~~~~~~~~vC~Y~ 144 (144)
T cd05380 79 LAEDAVNAWYNELKDYGFGSNPTNNFNSGIGHFTQMVWAKTTKVGCAVARCGKDGGNKTVVVCNYS 144 (144)
T ss_pred HHHHHHHHHHHHHHHcCCCcCcccccccchhHHHHHHHHhcCccceEEEEeecCCceEEEEEecCC
Confidence 578899999999999999875 22223 39999999999999999999999543 4689999995
No 11
>PF00188 CAP: Cysteine-rich secretory protein family; InterPro: IPR014044 The cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins (CAP) superfamily proteins are found in a wide range of organisms, including prokaryotes [] and non-vertebrate eukaryotes [], The nine subfamilies of the mammalian CAP superfamily include: the human glioma pathogenesis-related 1 (GLIPR1), Golgi associated pathogenesis related-1 (GAPR1) proteins, peptidase inhibitor 15 (PI15), peptidase inhibitor 16 (PI16), cysteine-rich secretory proteins (CRISPs), CRISP LCCL domain containing 1 (CRISPLD1), CRISP LCCL domain containing 2 (CRISPLD2), mannose receptor like and the R3H domain containing like proteins. Members are most often secreted and have an extracellular endocrine or paracrine function and are involved in processes including the regulation of extracellular matrix and branching morphogenesis, potentially as either proteases or protease inhibitors; in ion channel regulation in fertility; as tumour suppressor or pro-oncogenic genes in tissues including the prostate; and in cell-cell adhesion during fertilisation. The overall protein structural conservation within the CAP superfamily results in fundamentally similar functions for the CAP domain in all members, yet the diversity outside of this core region dramatically alters the target specificity and, thus, the biological consequences []. The Ca++-chelating function [] would fit with the various signalling processes (e.g. the CRISP proteins) that members of this family are involved in, and also the sequence and structural evidence of a conserved pocket containing two histidines and a glutamate. It also may explain how Q91055 from SWISSPROT blocks the Ca++ transporting ryanodine receptors. This entry represents the CAP domain common to all members of the CAP superfamily. The CAP domain forms a unique 3 layer alpha-beta-alpha fold with some, though not all, of the structural elements found in proteases [].; PDB: 3U3N_C 3U3U_C 3U3L_C 1U53_A 1RC9_A 1SMB_A 3NT8_B 1QNX_A 1WVR_A 3Q2U_A ....
Probab=99.24 E-value=7.2e-12 Score=69.68 Aligned_cols=56 Identities=30% Similarity=0.824 Sum_probs=41.7
Q ss_pred HHHHHhhcCCCCCCCCC-CcC--ceeccceeeeeccccEEEEEEEEccCCCc-EEEEEEe
Q 039461 9 VKLWVDERPKYNYNSNT-CVG--GECRHYTQVVWRNSVRLGCARVKCNNNRG-TFVICSY 64 (76)
Q Consensus 9 v~~W~~e~~~y~~~~~~-~~~--~~~~hftq~vw~~t~~vGCa~~~c~~~~~-~~~VC~Y 64 (76)
++.|+.+...+...... ... ..++||+||+|.++++||||++.|..... +++||+|
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~ll~~~~~~iGca~~~~~~~~~~~~~vc~y 124 (124)
T PF00188_consen 65 VENWYSESKNYNFQNQSIFNSWMNSPGHFTNLLWPNTTRIGCAVANCPNGKNNYYWVCNY 124 (124)
T ss_dssp HHHHHGGGGGEETTCSTEESSTTSTCHHHHHHT-TT--EEEEEEEEETTSSSEEEEEEEE
T ss_pred HHHHHhcccccccccchhhhccCCchhhhhhhhcCCCCEEEEEEEEeCCCCeeEEEEEEC
Confidence 88999999999877311 111 23899999999999999999999954433 9999998
No 12
>TIGR02909 spore_YkwD uncharacterized protein, YkwD family. Members of this protein family represent a subset of those belonging to Pfam family pfam00188 (SCP-like extracellular protein). Based on currently cuttoffs for this model, all member proteins are found in Bacteria capable of endospore formation. Members include a named but uncharacterized protein, YkwD of Bacillus subtilis. Only the C-terminal region is well-conserved and is included in the seed alignment for this model. Three members of this family have an N-terminal domain homologous to the spore coat assembly protein SafA.
Probab=97.56 E-value=0.00021 Score=41.52 Aligned_cols=30 Identities=17% Similarity=0.257 Sum_probs=24.2
Q ss_pred eccceeeeeccccEEEEEEEEccCCCcEEEE
Q 039461 31 CRHYTQVVWRNSVRLGCARVKCNNNRGTFVI 61 (76)
Q Consensus 31 ~~hftq~vw~~t~~vGCa~~~c~~~~~~~~V 61 (76)
.+|+.+|+|.+.+++|||++.+. ++..|.|
T Consensus 93 ~gH~~nil~~~~~~~Gvg~~~~~-~g~~y~~ 122 (127)
T TIGR02909 93 PGHRANILNPNYTEIGVGYVEGG-SGGIYWT 122 (127)
T ss_pred HhHHHHHcCCCcCeEeEEEEeCC-CCCeEEE
Confidence 58999999999999999999873 3444444
No 13
>cd05379 SCP_bacterial SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5 from vespid venom. It has been proposed that SCP domains may function as endopeptidases. Little is known about the biological roles of the bacterial and archaeal SCP domains.
Probab=97.49 E-value=0.00022 Score=40.16 Aligned_cols=45 Identities=18% Similarity=0.330 Sum_probs=33.7
Q ss_pred CHHHHHHHHHhhcCCCCCCCCCCcCceeccceeeeeccccEEEEEEEEccCCCcEEEEEEe
Q 039461 4 TGTAAVKLWVDERPKYNYNSNTCVGGECRHYTQVVWRNSVRLGCARVKCNNNRGTFVICSY 64 (76)
Q Consensus 4 ~~~~~v~~W~~e~~~y~~~~~~~~~~~~~hftq~vw~~t~~vGCa~~~c~~~~~~~~VC~Y 64 (76)
++.++++.|+++ .+|+.+|++...+++|||+.... ++..++|..|
T Consensus 77 ~~~~~~~~w~~~---------------~~H~~~ll~~~~~~~Gvg~~~~~-~~~~y~~~~f 121 (122)
T cd05379 77 TAEAAVDGWMNS---------------PGHRANILNPDYTEVGVGVAYGG-DGGYYWVQVF 121 (122)
T ss_pred CHHHHHHHHhCC---------------HhHHHHHcCCCcceeeEEEEeCC-CCCeEEEEec
Confidence 456677777533 58999999999999999999873 3456666554
No 14
>KOG0286 consensus G-protein beta subunit [General function prediction only]
Probab=83.50 E-value=1.9 Score=29.24 Aligned_cols=35 Identities=20% Similarity=0.451 Sum_probs=21.0
Q ss_pred eeeeeccccEEEEEEEEccCCCcEEEEEEecCCCCCC
Q 039461 35 TQVVWRNSVRLGCARVKCNNNRGTFVICSYDPPGNVA 71 (76)
Q Consensus 35 tq~vw~~t~~vGCa~~~c~~~~~~~~VC~Y~p~GN~~ 71 (76)
--+||+.-+.---.... -...++|.|.|+|.||..
T Consensus 78 klIvWDs~TtnK~haip--l~s~WVMtCA~sPSg~~V 112 (343)
T KOG0286|consen 78 KLIVWDSFTTNKVHAIP--LPSSWVMTCAYSPSGNFV 112 (343)
T ss_pred eEEEEEcccccceeEEe--cCceeEEEEEECCCCCeE
Confidence 35777654432222111 123689999999999864
No 15
>PF09907 DUF2136: Uncharacterized protein conserved in bacteria (DUF2136); InterPro: IPR018669 HigB (YgjN) is the toxin of the HigB-HigA toxin-antitoxin system, acting as a translation-dependent mRNA interferase. HigB inhibits protein synthesis by cleaving translated mRNAs within the coding region []. ; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=35.73 E-value=23 Score=18.91 Aligned_cols=20 Identities=20% Similarity=0.443 Sum_probs=17.1
Q ss_pred HHHHHHHHHhhcCCCCCCCC
Q 039461 5 GTAAVKLWVDERPKYNYNSN 24 (76)
Q Consensus 5 ~~~~v~~W~~e~~~y~~~~~ 24 (76)
.+.+++.|+.+.+.-+|.++
T Consensus 2 a~~~L~~W~~~~~~a~w~~~ 21 (76)
T PF09907_consen 2 AKQALEAWYREVKKADWKNP 21 (76)
T ss_pred hHHHHHHHHHHHHHccCCCH
Confidence 46889999999999888764
No 16
>PHA00684 hypothetical protein
Probab=34.07 E-value=14 Score=21.83 Aligned_cols=12 Identities=25% Similarity=0.462 Sum_probs=9.6
Q ss_pred ccEEEEEEEEcc
Q 039461 42 SVRLGCARVKCN 53 (76)
Q Consensus 42 t~~vGCa~~~c~ 53 (76)
.|+||||++-..
T Consensus 79 VT~IGCGiAG~~ 90 (128)
T PHA00684 79 VTRVGCGLAGHL 90 (128)
T ss_pred eeeeccccccCC
Confidence 478999998763
No 17
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=32.51 E-value=46 Score=15.70 Aligned_cols=12 Identities=25% Similarity=0.318 Sum_probs=8.8
Q ss_pred ccccEEEEEEEE
Q 039461 40 RNSVRLGCARVK 51 (76)
Q Consensus 40 ~~t~~vGCa~~~ 51 (76)
+.+..||||+..
T Consensus 8 ~~~vaIa~~VvV 19 (40)
T PF08693_consen 8 SNTVAIAVGVVV 19 (40)
T ss_pred CceEEEEEEEEe
Confidence 356779999874
No 18
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=22.18 E-value=1e+02 Score=14.15 Aligned_cols=15 Identities=27% Similarity=0.344 Sum_probs=10.6
Q ss_pred CCCHHHHHHHHHhhc
Q 039461 2 DLTGTAAVKLWVDER 16 (76)
Q Consensus 2 ~~~~~~~v~~W~~e~ 16 (76)
++++..||+.+|++.
T Consensus 26 ~wdle~Av~~y~~~~ 40 (43)
T PF14555_consen 26 NWDLEAAVNAYFDDG 40 (43)
T ss_dssp TT-HHHHHHHHHHSS
T ss_pred CCCHHHHHHHHHhCC
Confidence 467888888888754
No 19
>PF12387 Peptidase_C74: Pestivirus NS2 peptidase; InterPro: IPR022120 The pestivirus NS2 peptidase is responsible for single cleavage between NS2 and NS3 of the Bovine viral diarrhea virus 1 polyprotein, a cleavage that is correlated with cytopathogenicity []. The peptidase is activated by its interaction with 'J-domain protein interacting with viral protein' - Jiv. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=22.18 E-value=59 Score=20.48 Aligned_cols=18 Identities=22% Similarity=0.471 Sum_probs=15.0
Q ss_pred HHHHHHHHhhcCCCCCCC
Q 039461 6 TAAVKLWVDERPKYNYNS 23 (76)
Q Consensus 6 ~~~v~~W~~e~~~y~~~~ 23 (76)
.+.|.+||+|..-|..+.
T Consensus 129 Ne~v~~Wf~EeEvyGmpK 146 (200)
T PF12387_consen 129 NETVASWFGEEEVYGMPK 146 (200)
T ss_pred hHHHHHHcccccccCcch
Confidence 367899999999998764
No 20
>PF10816 DUF2760: Domain of unknown function (DUF2760); InterPro: IPR021212 This is a bacterial family of uncharacterised proteins.
Probab=20.80 E-value=40 Score=19.90 Aligned_cols=10 Identities=50% Similarity=1.119 Sum_probs=8.4
Q ss_pred CCCCCCCCCC
Q 039461 67 PGNVAGKRPY 76 (76)
Q Consensus 67 ~GN~~g~~~Y 76 (76)
.||+.|++||
T Consensus 82 tGnV~G~pPf 91 (125)
T PF10816_consen 82 TGNVVGEPPF 91 (125)
T ss_pred EeeecccCCC
Confidence 4899999987
Done!