Query psy9010
Match_columns 131
No_of_seqs 114 out of 1012
Neff 4.9
Searched_HMMs 46136
Date Sat Aug 17 01:29:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9010.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9010hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02447 1,4-alpha-glucan-bran 99.7 4.2E-16 9.2E-21 142.9 9.8 92 8-99 658-752 (758)
2 PLN03244 alpha-amylase; Provis 99.6 1.6E-15 3.4E-20 139.9 8.1 77 8-85 793-871 (872)
3 PRK12568 glycogen branching en 99.5 3E-14 6.5E-19 130.4 8.4 72 8-81 658-729 (730)
4 PRK14706 glycogen branching en 99.5 4.6E-14 1E-18 127.3 8.3 71 8-81 552-622 (639)
5 PLN02960 alpha-amylase 99.5 1.4E-13 2.9E-18 128.1 8.0 78 8-85 818-896 (897)
6 PRK14705 glycogen branching en 99.4 2.9E-13 6.3E-18 129.3 8.2 72 8-81 1152-1223(1224)
7 PF02806 Alpha-amylase_C: Alph 99.4 1.2E-13 2.6E-18 95.0 2.4 67 8-81 28-94 (95)
8 TIGR01515 branching_enzym alph 99.2 1.7E-11 3.6E-16 109.8 7.4 69 9-79 545-613 (613)
9 PRK12313 glycogen branching en 99.2 4E-11 8.6E-16 107.5 8.3 73 8-82 557-629 (633)
10 PRK05402 glycogen branching en 99.2 7E-11 1.5E-15 107.7 8.2 71 9-81 654-724 (726)
11 COG0296 GlgB 1,4-alpha-glucan 98.7 1.1E-08 2.3E-13 93.0 5.1 73 7-80 555-628 (628)
12 KOG0470|consensus 98.3 1.1E-06 2.3E-11 81.1 6.4 74 8-81 680-753 (757)
13 PF11138 DUF2911: Protein of u 59.9 23 0.0005 27.1 4.9 20 23-42 73-92 (145)
14 PF11941 DUF3459: Domain of un 50.0 36 0.00079 22.3 4.1 12 67-78 78-89 (89)
15 PF08473 VGCC_alpha2: Neuronal 48.4 43 0.00092 24.2 4.4 48 28-81 26-73 (94)
16 PF08980 DUF1883: Domain of un 34.6 23 0.0005 25.4 1.3 25 12-36 49-73 (94)
17 PF10438 Cyc-maltodext_C: Cycl 24.7 75 0.0016 21.7 2.4 14 67-80 65-78 (78)
18 PF02753 PapD_C: Pili assembly 24.3 58 0.0013 20.6 1.7 32 69-100 32-64 (68)
No 1
>PLN02447 1,4-alpha-glucan-branching enzyme
Probab=99.65 E-value=4.2e-16 Score=142.92 Aligned_cols=92 Identities=30% Similarity=0.352 Sum_probs=77.1
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEecc---hh
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQS---MK 84 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~~---~~ 84 (131)
-||+++++|++|+||||.+|.|++|||||+..|||+++++....+.+.+.+|++++++|+|+|||++|+||+++. ..
T Consensus 658 ~NF~p~~s~~~Y~igvp~~G~y~~ilnSD~~~fGG~~~~~~~~~~~~~~~~~~~~~~s~~v~iP~~~~~vl~~~~~~~~~ 737 (758)
T PLN02447 658 FNFHPTNSYSDYRVGCDKPGKYKIVLDSDAWEFGGFGRVDHDADHFTPEGNFDNRPHSFMVYAPSRTAVVYAPVDEDDEP 737 (758)
T ss_pred EeCCCCCCCCCcEECCCCCCeEEEEECCCchhcCCCCccCCCccEEecccCcCCCCcEEEEEeCCceEEEEEECCccccc
Confidence 399999999999999999999999999999999999986655668888889999999999999999999999974 33
Q ss_pred hheeccccccccccc
Q psy9010 85 RYIQTESNMNGFGIQ 99 (131)
Q Consensus 85 ~~~~~~~~~~~~~~~ 99 (131)
...++....+.+|+.
T Consensus 738 ~~~~~~~~~~~~~~~ 752 (758)
T PLN02447 738 ADRKPVGINGLAGRD 752 (758)
T ss_pred ccccccccccccccc
Confidence 344444444445443
No 2
>PLN03244 alpha-amylase; Provisional
Probab=99.60 E-value=1.6e-15 Score=139.85 Aligned_cols=77 Identities=30% Similarity=0.506 Sum_probs=68.3
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEe--eecCCCCcccEEEEecCCceEEEEEecchhh
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYET--YPEPWNNRRNSIKLYLPTRTGNENKLQSMKR 85 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t--~~~~~~gr~~sL~I~LPplSaiIfk~~~~~~ 85 (131)
-||+|.++|++|+||||.+|.|++|||||+..|||+++++.. .+.+ .+.+|++++++|+|+|||++|+||++.++.|
T Consensus 793 fNF~P~~sy~dYrIGVp~~G~Y~eILNSD~~~FGG~g~~~~~-~~~t~~~~~~~~gr~~sl~l~LPprsavVlk~~~~~~ 871 (872)
T PLN03244 793 FNFHPSNSYEGYDVGVEEAGEYQIILNSDETKYGGQGIIEED-HYLQRSINKRIDGLRNCLEVFLPSRTAQVYKLSRILR 871 (872)
T ss_pred EeCCCCCCccCCEECCCCCCeEEEEEeCChhhhCCCCccCCC-ceeecccccccCCCCceEEEEeCCCEEEEEEEeeEee
Confidence 399999999999999999999999999999999999975433 3554 5567999999999999999999999998876
No 3
>PRK12568 glycogen branching enzyme; Provisional
Probab=99.52 E-value=3e-14 Score=130.43 Aligned_cols=72 Identities=26% Similarity=0.358 Sum_probs=65.7
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
-||.+. .+++|+||||.+|.|++|||||+.+|||++. .+...+.+.+.+|+++++||+|+|||++++||++.
T Consensus 658 ~Nft~~-~~~~Y~ig~p~~G~~~eilNsd~~~ygG~~~-~n~~~~~~~~~~~~g~~~s~~i~lppl~~~~~~~~ 729 (730)
T PRK12568 658 SNLTPQ-PHHDYRVGVPRAGGWREILNTDSAHYGGSNL-GNSGRLATEPTGMHGHAQSLRLTLPPLATIYLQAE 729 (730)
T ss_pred ECCCCC-CccCeEECCCCCCeEEEEEcCchhhhCCCCc-CCCCceeecccccCCCccEEEEEeCCCEEEEEEEC
Confidence 378776 7999999999999999999999999999986 66667888999999999999999999999999975
No 4
>PRK14706 glycogen branching enzyme; Provisional
Probab=99.50 E-value=4.6e-14 Score=127.33 Aligned_cols=71 Identities=25% Similarity=0.381 Sum_probs=64.6
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
-||++ ..+++|+||||.+|.|++|||||+.+|||+++. +. .+.+...+|++++++|+|+|||++++||++.
T Consensus 552 ~Nfs~-~~~~~y~ig~p~~g~~~~i~nsd~~~~gG~g~~-n~-~~~~~~~~~~g~~~si~i~lp~~~~~~~~~~ 622 (639)
T PRK14706 552 ANLTP-VYREQYRIGVPQGGEYRVLLSTDDGEYGGFGTQ-QP-DLMASQEGWHGQPHSLSLNLPPSSVLILEFV 622 (639)
T ss_pred EeCCC-CCcCCeEECCCCCCeEEEEEcCCccccCCCCCC-CC-ceeccccccCCCccEEEEEeCCcEEEEEEEC
Confidence 38888 689999999999999999999999999999974 33 5788888999999999999999999999987
No 5
>PLN02960 alpha-amylase
Probab=99.46 E-value=1.4e-13 Score=128.06 Aligned_cols=78 Identities=31% Similarity=0.479 Sum_probs=68.4
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceE-EeeecCCCCcccEEEEecCCceEEEEEecchhh
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVY-ETYPEPWNNRRNSIKLYLPTRTGNENKLQSMKR 85 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~-~t~~~~~~gr~~sL~I~LPplSaiIfk~~~~~~ 85 (131)
-||++..++.+|+||||.+|.|++|||||+..|||.++....... .+...+|++++++|.|+|||++++||++.++.|
T Consensus 818 ~NFsp~~~~~~Y~vgvP~~G~y~eilNSD~~~yGG~g~~~~~~~~~~t~~~~~~g~~~si~i~LPp~sa~v~k~~~~~~ 896 (897)
T PLN02960 818 FNFHPTNSYEEYEVGVEEAGEYELILNTDEVKYGGQGRLTEDQYLQRTKSKRIDGLRNCLELTLPSRSAQVYKLARILR 896 (897)
T ss_pred EeCCCCCcCcCceECCCCCCcEEEEEeCchhhcCCCCccCCCcceeeccccccCCCCceEEEEeCCCEEEEEEEeeeec
Confidence 499998899999999999999999999999999999875433223 567788999999999999999999999987765
No 6
>PRK14705 glycogen branching enzyme; Provisional
Probab=99.43 E-value=2.9e-13 Score=129.32 Aligned_cols=72 Identities=17% Similarity=0.160 Sum_probs=65.9
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
-||.+ ..+++|+||||.+|.|++|||||+.+|||++. .+...+.+.+.+|+++++||+|+|||++++||++.
T Consensus 1152 ~Nftp-~~~~~y~igvp~~G~y~eilnsd~~~ygGsg~-~n~~~~~~~~~~~~g~~~s~~i~lPpl~~~~~~~~ 1223 (1224)
T PRK14705 1152 INFSG-GPHKGYTLGVPAAGAWTEVLNTDHETYGGSGV-LNPGSLKATTEGQDGQPATLTVTLPPLGASFFAPA 1223 (1224)
T ss_pred EcCCC-CCccCceECCCCCCeEEEEEeCchhhcCCCCc-CCCCceeecccccCCCCceEEEEecCCEEEEEEEC
Confidence 48877 69999999999999999999999999999987 55667888888999999999999999999999975
No 7
>PF02806 Alpha-amylase_C: Alpha amylase, C-terminal all-beta domain; InterPro: IPR006048 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Alpha-amylase is classified as family 13 of the glycosyl hydrolases and is present in archaea, bacteria, plants and animals. Alpha-amylase is an essential enzyme in alpha-glucan metabolism, acting to catalyse the hydrolysis of alpha-1,4-glucosidic bonds of glycogen, starch and related polysaccharides. Although all alpha-amylases possess the same catalytic function, they can vary with respect to sequence. In general, they are composed of three domains: a TIM barrel containing the active site residues and chloride ion-binding site (domain A), a long loop region inserted between the third beta strand and the alpha-helix of domain A that contains calcium-binding site(s) (domain B), and a C-terminal beta-sheet domain that appears to show some variability in sequence and length between amylases (domain C) []. Amylases have at least one conserved calcium-binding site, as calcium is essential for the stability of the enzyme. The chloride-binding functions to activate the enzyme, which acts by a two-step mechanism involving a catalytic nucleophile base (usually an Asp) and a catalytic proton donor (usually a Glu) that are responsible for the formation of the beta-linked glycosyl-enzyme intermediate. This entry represents the all-beta domain that is found in several alpha-amylases, usually at the C terminus, and which forms a Greek key beta-barrel fold in these enzymes []. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0003824 catalytic activity, 0043169 cation binding, 0005975 carbohydrate metabolic process; PDB: 1TCM_A 1CXL_A 1PJ9_A 1OT2_A 2DIJ_A 1CGV_A 1CXK_A 1PEZ_A 1CGX_A 2CXG_A ....
Probab=99.40 E-value=1.2e-13 Score=94.97 Aligned_cols=67 Identities=30% Similarity=0.377 Sum_probs=55.0
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
-||.+...+.+|++|+|.+|+|++|||||+..|||++. .....+. ..++++ ++|+|||++++||+.+
T Consensus 28 ~Nf~~~~~~~~~~~~~p~~g~y~~vlnsd~~~~~g~~~-~~~~~v~---~~~~g~---~~~~lp~~s~~vl~~~ 94 (95)
T PF02806_consen 28 FNFSPEAVYEDYRIGVPEAGRYKEVLNSDDEEYGGSGK-GNSGEVT---VDSNGR---ITVTLPPYSALVLKLK 94 (95)
T ss_dssp EESSSS-EEEEEEECSSSSEEEEETTTTTCEEEEESSC-SETSEEE---EETTSE---EEEEESTTEEEEEEEE
T ss_pred EECCCcccceeEEeCCCCcceeeEEeCCCccEECCccc-ccCceEE---EeeCCE---EEEEECCCEEEEEEEc
Confidence 48888879999999999999999999999999999876 4333333 334554 8999999999999875
No 8
>TIGR01515 branching_enzym alpha-1,4-glucan:alpha-1,4-glucan 6-glycosyltransferase. A sequence from Arabidopsis thaliana, GP|9294564, scores just above trusted, but appears either to contain corrupt sequence or, more likely, to be a pseudogene as some of the conserved catalytic residues common to the alpha amylase family are not conserved here.
Probab=99.24 E-value=1.7e-11 Score=109.85 Aligned_cols=69 Identities=25% Similarity=0.309 Sum_probs=61.0
Q ss_pred cCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEE
Q psy9010 9 QYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENK 79 (131)
Q Consensus 9 nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk 79 (131)
||.+ ..+.+|+|++|.+|.|++|||||+.+|||.++. +.....+....|++++++|.|+|||++++||+
T Consensus 545 N~~~-~~~~~Y~i~~p~~g~~~~il~Sd~~~~gG~g~~-~~~~~~~~~~~~~g~~~~i~i~iP~~~~~~~~ 613 (613)
T TIGR01515 545 NFTP-VVRHQYRVGVPQPGQYREVLNSDSETYGGSGQG-NKGPLSAEEGALHGRPCSLTMTLPPLATSWLR 613 (613)
T ss_pred eCCC-CCccceEeCCCCCCeEEEEEeCChhhcCCCCcC-CCCceeccccccCCCCCEEEEEeCCcEEEEeC
Confidence 7766 578999999999999999999999999999874 44456777778999999999999999999985
No 9
>PRK12313 glycogen branching enzyme; Provisional
Probab=99.21 E-value=4e-11 Score=107.48 Aligned_cols=73 Identities=26% Similarity=0.397 Sum_probs=64.3
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEecc
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQS 82 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~~ 82 (131)
-||.+ ..+++|+|++|.+|.|++|||||+.+|||+++ .+...+.+....|++++++|.|+|||++++||+++.
T Consensus 557 ~N~s~-~~~~~y~i~~p~~g~~~~ilnsd~~~ygG~~~-~~~~~~~~~~~~~~g~~~~~~i~ip~~s~~v~~~~~ 629 (633)
T PRK12313 557 FNFTP-VEREDYRIGVPVAGIYEEILNTDSEEFGGSGK-GNNGTVKAQEGPWHGRPQSLTLTLPPLGALVLKPKR 629 (633)
T ss_pred EeCCC-CcccceeECCCCCCeEEEEEcCCchhcCCCCc-CCCCceeecccccCCCCCEEEEEeCCCEEEEEEEcc
Confidence 37766 46889999999999999999999999999987 455567777788999999999999999999999874
No 10
>PRK05402 glycogen branching enzyme; Provisional
Probab=99.17 E-value=7e-11 Score=107.66 Aligned_cols=71 Identities=31% Similarity=0.469 Sum_probs=63.4
Q ss_pred cCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 9 QYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 9 nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
||.+ ..+++|+|++|.+|.|++|||||+.+|||++. .+...+.+.+.+|+++++++.|+|||+|++||++.
T Consensus 654 N~~~-~~~~~y~i~~p~~g~~~~ilnsd~~~~gg~~~-~~~~~~~~~~~~~~g~~~~~~i~lp~~~~~v~~~~ 724 (726)
T PRK05402 654 NFTP-VPRHDYRLGVPQAGRWREVLNTDAEHYGGSNV-GNGGGVHAEEVPWHGRPHSLSLTLPPLATLILKPE 724 (726)
T ss_pred eCCC-CcccceEECCCCCCeEEEEEcCcchhhCCCCC-CCCCceeccccccCCCCCEEEEEeCCCEEEEEEEc
Confidence 7765 57889999999999999999999999999987 34456788888999999999999999999999985
No 11
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=98.74 E-value=1.1e-08 Score=92.99 Aligned_cols=73 Identities=26% Similarity=0.323 Sum_probs=64.5
Q ss_pred cccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCce-EEeeecCCCCcccEEEEecCCceEEEEEe
Q psy9010 7 ERQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTV-YETYPEPWNNRRNSIKLYLPTRTGNENKL 80 (131)
Q Consensus 7 ~~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~-~~t~~~~~~gr~~sL~I~LPplSaiIfk~ 80 (131)
-.|++..+.+.+|++|+|..|.|+++||||+..|||++. .+... +.++...++++.+++++.|||+++++|+.
T Consensus 555 ~~~n~~~~~~~~y~~~~~~~g~~~~~lntd~~~~ggs~~-~~~~~~~~~~~~~~~~~~~~~~~~lpp~~~~~l~~ 628 (628)
T COG0296 555 VVNNFTPVPRVDYRVGVPVAGRWREVLNTDLAEYGGSGA-GNLGLPVSGEDILWHGREWSLSLTLPPLAALVLKL 628 (628)
T ss_pred EEeCCCCCcccccccCCcccccEEEeccchHHHhcCCcc-ccccceecceeeeccCcceeeEEecCCceeeEeeC
Confidence 356778889999999999999999999999999999987 33444 88888889999999999999999999873
No 12
>KOG0470|consensus
Probab=98.32 E-value=1.1e-06 Score=81.14 Aligned_cols=74 Identities=34% Similarity=0.528 Sum_probs=67.2
Q ss_pred ccCCCCCccCCCEEccCCCCeEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 8 RQYLHQHSILFPRVGVEQAGKYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 8 ~nf~s~~syedYrIGVP~~G~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
-||++..++.+|+||+..+|.|++|||||...|||+.++.......+....+++++..+.+++|...|+|+...
T Consensus 680 fn~h~~~s~~d~~vg~n~~~~~~iVl~sd~p~~~~~~rl~dt~~~~p~d~~~~g~~~~l~VY~~~~~a~vl~~~ 753 (757)
T KOG0470|consen 680 FNFHDSNSYIDYRVGFNAPGKYTIVLNSDRPKGGGWNRLDDTALFFPYDFRSEGRPVSLQVYIPSRTATVLALL 753 (757)
T ss_pred EEecCCCCCceeEEEecCCCceEEEECCCCCCCCCccccccccccCccccccCCeeeeEEEEeccCcceEeeec
Confidence 38999999999999999999999999999999999998866556667778889999999999999999999765
No 13
>PF11138 DUF2911: Protein of unknown function (DUF2911); InterPro: IPR021314 This bacterial family of proteins has no known function.
Probab=59.86 E-value=23 Score=27.10 Aligned_cols=20 Identities=15% Similarity=0.576 Sum_probs=16.8
Q ss_pred cCCCCeEEEEEcCCCCCCCC
Q psy9010 23 VEQAGKYKVVLDSDCSHFGG 42 (131)
Q Consensus 23 VP~~G~YkeILNSD~~~YGG 42 (131)
.|....|++|||+|...||-
T Consensus 73 iP~~~~WtvI~n~~~~~wG~ 92 (145)
T PF11138_consen 73 IPGEDEWTVIFNKDTDQWGA 92 (145)
T ss_pred ecCCCeEEEEEECCCCccCc
Confidence 45666799999999999875
No 14
>PF11941 DUF3459: Domain of unknown function (DUF3459); InterPro: IPR022567 This functionally uncharacterised domain is found in bacteria. It is about 110 amino acids in length and is found C-terminal to PF00128 from PFAM, PF02922 from PFAM. ; GO: 0033942 4-alpha-D-{(1->4)-alpha-D-glucano}trehalose trehalohydrolase activity; PDB: 2WC7_A 2WCS_A 2WKG_A 3M07_A 2PWD_A 1ZJB_A 2PWF_C 2PWE_A 2PWG_A 2PWH_A ....
Probab=50.02 E-value=36 Score=22.27 Aligned_cols=12 Identities=17% Similarity=-0.150 Sum_probs=9.5
Q ss_pred EEecCCceEEEE
Q psy9010 67 KLYLPTRTGNEN 78 (131)
Q Consensus 67 ~I~LPplSaiIf 78 (131)
.+.|||++++|+
T Consensus 78 ~~~L~p~~~~v~ 89 (89)
T PF11941_consen 78 AGTLPPWSVVVL 89 (89)
T ss_dssp EEEE-TTEEEEE
T ss_pred CceECCCEEEEC
Confidence 689999999886
No 15
>PF08473 VGCC_alpha2: Neuronal voltage-dependent calcium channel alpha 2acd; InterPro: IPR013680 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. This eukaryotic domain has been found in the neuronal voltage-dependent calcium channel (VGCC) alpha 2a, 2c, and 2d subunits. It is also found in other calcium channel alpha-2/delta subunits to the N terminus of a Cache domain (IPR004010 from INTERPRO).
Probab=48.45 E-value=43 Score=24.18 Aligned_cols=48 Identities=15% Similarity=0.072 Sum_probs=33.9
Q ss_pred eEEEEEcCCCCCCCCCCcCCCCceEEeeecCCCCcccEEEEecCCceEEEEEec
Q psy9010 28 KYKVVLDSDCSHFGGFNRLDPGTVYETYPEPWNNRRNSIKLYLPTRTGNENKLQ 81 (131)
Q Consensus 28 ~YkeILNSD~~~YGGsg~v~~~~~~~t~~~~~~gr~~sL~I~LPplSaiIfk~~ 81 (131)
+.+.++-|++++|=.... -.-.-.+-++-+|||.+-||+|+.-+++-.
T Consensus 26 ~i~tlvks~DeRYId~~~------RtYtw~PI~gT~ySLaLVLP~Ys~~~i~A~ 73 (94)
T PF08473_consen 26 TIRTLVKSQDERYIDEVN------RTYTWTPINGTDYSLALVLPSYSMYYIQAN 73 (94)
T ss_pred EEEEEEeeccceeeeeec------eeEEEeccCCCcceeEEEcCCCccceeecc
Confidence 456678888888844322 122345678999999999999987776653
No 16
>PF08980 DUF1883: Domain of unknown function (DUF1883); InterPro: IPR015073 This family consist of hypothetical bacterial proteins. ; PDB: 2B1Y_A.
Probab=34.62 E-value=23 Score=25.43 Aligned_cols=25 Identities=28% Similarity=0.353 Sum_probs=5.4
Q ss_pred CCCccCCCEEccCCCCeEEEEEcCC
Q psy9010 12 HQHSILFPRVGVEQAGKYKVVLDSD 36 (131)
Q Consensus 12 s~~syedYrIGVP~~G~YkeILNSD 36 (131)
+-....-.+|.||..|.|.+++|+.
T Consensus 49 G~~~~~Pa~i~VP~sG~W~vvID~~ 73 (94)
T PF08980_consen 49 GVAKRSPARITVPYSGHWNVVIDSH 73 (94)
T ss_dssp ----SSS------SSS--------T
T ss_pred eecccCceEEECCCCceEEEEEECC
Confidence 3445567899999999999999994
No 17
>PF10438 Cyc-maltodext_C: Cyclo-malto-dextrinase C-terminal domain; InterPro: IPR019492 This domain is at the very C terminus of cyclo-malto-dextrinase proteins and consists of 8 beta strands, is largely globular and appears to help stabilise the active sites created by upstream domains, IPR015171 from INTERPRO, and IPR006047 from INTERPRO. Cyclo-malto-dextrinases hydrolyse cyclodextrans to maltose and glucose and catalyse trans-glycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=24.66 E-value=75 Score=21.69 Aligned_cols=14 Identities=29% Similarity=0.287 Sum_probs=11.4
Q ss_pred EEecCCceEEEEEe
Q psy9010 67 KLYLPTRTGNENKL 80 (131)
Q Consensus 67 ~I~LPplSaiIfk~ 80 (131)
+|.|||++++|+++
T Consensus 65 ~l~l~~~~~~ILel 78 (78)
T PF10438_consen 65 NLTLPPKSVLILEL 78 (78)
T ss_dssp EEEE-TTEEEEEEE
T ss_pred cEEECCCceEEEEC
Confidence 68999999999874
No 18
>PF02753 PapD_C: Pili assembly chaperone PapD, C-terminal domain; InterPro: IPR016148 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the C-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of eight strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2UY7_C 2UY6_A 2W07_A 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 1PDK_A 2XG4_A ....
Probab=24.35 E-value=58 Score=20.57 Aligned_cols=32 Identities=13% Similarity=0.065 Sum_probs=20.9
Q ss_pred ecCCceEEEEEecchhhh-eecccccccccccc
Q psy9010 69 YLPTRTGNENKLQSMKRY-IQTESNMNGFGIQT 100 (131)
Q Consensus 69 ~LPplSaiIfk~~~~~~~-~~~~~~~~~~~~~~ 100 (131)
-|+|++..-|........ -=+-.-++|||...
T Consensus 32 mi~P~s~~~~~~~~~~~~~~v~~~~InDyG~~~ 64 (68)
T PF02753_consen 32 MIAPFSSKSFPLPANSSSSKVSFSYINDYGGVI 64 (68)
T ss_dssp EE-TTEEEEEETSTTSTT-EEEEEEE-TTSSBE
T ss_pred EECCCCceEEeccCCCcCCeEEEEEEeeCCCCc
Confidence 689999999887743332 44556789999754
Done!