Query psy1511
Match_columns 133
No_of_seqs 105 out of 237
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 20:52:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1511.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1511hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00218 GlcAT-I Beta1,3-glucur 100.0 7.7E-52 1.7E-56 331.9 9.0 109 2-110 115-223 (223)
2 PF03360 Glyco_transf_43: Glyc 100.0 1.9E-52 4E-57 332.4 4.9 109 2-110 97-207 (207)
3 KOG1476|consensus 100.0 6E-49 1.3E-53 327.4 8.3 112 2-113 201-314 (330)
4 PLN02458 transferase, transfer 100.0 7.5E-42 1.6E-46 286.6 8.6 109 2-112 222-342 (346)
5 PF00718 Polyoma_coat: Polyoma 42.7 27 0.00058 29.8 3.1 52 24-85 230-288 (297)
6 PHA02614 Major capsid protein 29.3 54 0.0012 28.7 2.9 52 24-85 248-306 (363)
7 TIGR02038 protease_degS peripl 27.1 60 0.0013 27.4 2.8 37 24-60 202-240 (351)
8 PRK10139 serine endoprotease; 21.5 91 0.002 27.5 2.9 35 24-60 216-252 (455)
9 PF07858 LEH: Limonene-1,2-epo 19.6 1.3E+02 0.0028 22.2 3.0 22 18-39 88-114 (125)
10 TIGR02037 degP_htrA_DO peripla 16.7 1.3E+02 0.0027 25.9 2.7 36 24-60 183-219 (428)
No 1
>cd00218 GlcAT-I Beta1,3-glucuronyltransferase I (GlcAT-I) is involved in the initial steps of proteoglycan synthesis. Beta1,3-glucuronyltransferase I (GlcAT-I) domain; GlcAT-I is a Key enzyme involved in the initial steps of proteoglycan synthesis. GlcAT-I catalyzes the transfer of a glucuronic acid moiety from the uridine diphosphate-glucuronic acid (UDP-GlcUA) to the common linkage region of trisaccharide Gal-beta-(1-3)-Gal-beta-(1-4)-Xyl of proteoglycans. The enzyme has two subdomains that bind the donor and acceptor substrate separately. The active site is located at the cleft between both subdomains in which the trisaccharide molecule is oriented perpendicular to the UDP. This family has been classified as Glycosyltransferase family 43 (GT-43).
Probab=100.00 E-value=7.7e-52 Score=331.90 Aligned_cols=109 Identities=57% Similarity=1.115 Sum_probs=106.8
Q ss_pred cccceeEEeeeeceeecceeeeceeEeCCeEEEEecccCCCCCCCcccceeeeeeccccccccccccccccCCchhhHHH
Q psy1511 2 EMRKIKKVGIWPVGLVGGLKVEKPVVQDGKVIGFNSMWAPQRPYPIDMAGFAINLDLMKKNENVKFSFDVQKGYQESAIL 81 (133)
Q Consensus 2 EmR~~k~vgvWPVG~vg~~~vEgPvc~~g~Vvgw~~~~~~~R~f~iDmAGFA~n~~lL~~~p~~~f~~~~~~G~~Es~fL 81 (133)
|||+||+||+||||++|++.||||+|++|||+|||+.|.+.|||||||||||||+++||++|++.|+.++++|+||++||
T Consensus 115 emR~i~~vg~WPVglvg~~~vegP~c~~gkV~gw~~~w~~~R~f~idmAGFA~n~~ll~~~~~~~~~~~~~~g~~es~fl 194 (223)
T cd00218 115 EMRKIKRVGVWPVGLVGGLRVEGPVCENGKVVGWHTAWKPERPFPIDMAGFAFNSKLLWDPPRAVFPYSAKRGYQESSFL 194 (223)
T ss_pred HHhccCeeeEEEeeeecCceeeccEeeCCeEeEEecCCCCCCCCcceeeeEEEehhhhccCccccCCCCCCCcchhHHhH
Confidence 89999999999999999999999999999999999999999999999999999999999999999998899999999999
Q ss_pred HHhcCCcccceecCCCCceEEEEeeecCC
Q psy1511 82 SKVLSSAQELEPLAENCTKVYVWHTRTTD 110 (133)
Q Consensus 82 ~~L~~~~~~lEpl~~~c~~VlVWHtrte~ 110 (133)
+||++|++++||+|+||++|||||||||+
T Consensus 195 ~~L~~~~~~~Epl~~~c~~VlvWhtrte~ 223 (223)
T cd00218 195 EQLVLDRKELEPLANNCSKVLVWHTRTEK 223 (223)
T ss_pred HHHcccHHhcccccCCCCEEEEEeeecCC
Confidence 99999999999999999999999999985
No 2
>PF03360 Glyco_transf_43: Glycosyltransferase family 43; InterPro: IPR005027 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 43 GT43 from CAZY comprises enzymes with only one known activities; beta-glucuronyltransferase(2.4.1 from EC);.; GO: 0015018 galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity, 0016020 membrane; PDB: 2D0J_B 3CU0_A 1FGG_B 1KWS_B 1V84_B 1V83_B 1V82_A.
Probab=100.00 E-value=1.9e-52 Score=332.35 Aligned_cols=109 Identities=56% Similarity=1.106 Sum_probs=85.6
Q ss_pred cccceeEEeeeeceeecceeeeceeEeCCeEEEEecccCCCCCCCcccceeeeeeccccccccccccccccC--CchhhH
Q psy1511 2 EMRKIKKVGIWPVGLVGGLKVEKPVVQDGKVIGFNSMWAPQRPYPIDMAGFAINLDLMKKNENVKFSFDVQK--GYQESA 79 (133)
Q Consensus 2 EmR~~k~vgvWPVG~vg~~~vEgPvc~~g~Vvgw~~~~~~~R~f~iDmAGFA~n~~lL~~~p~~~f~~~~~~--G~~Es~ 79 (133)
|||+||+|||||||++|++.||||+|++++|+|||+.|.|+|+|||||||||||++|||++|++.|++.+++ ||+|++
T Consensus 97 emR~~k~vgvWPVG~vg~~~~EgP~~~~~~Vvgw~~~~~~~R~fpiDmAGFAvn~~ll~~~~~~~~~~~~~~~~G~~Es~ 176 (207)
T PF03360_consen 97 EMRKTKRVGVWPVGLVGGLRVEGPVCNNGKVVGWHTSWKPDRPFPIDMAGFAVNSRLLWDRPEAIFDYSAPRGEGYQESS 176 (207)
T ss_dssp HHCT-SSEEE--EEEETTEEEEEEEEETTEEEEEE-SSSTTSTT---GGGEEEEHHHHHHSTT----TTSSTT-TGHHHH
T ss_pred HHHhhhcccceeeceeccceeeccEEeCCEEEEEEcccCCCCCccccceeeeeehHHHhcCccccccccCCCCCCcchhH
Confidence 899999999999999999999999999999999999999999999999999999999999999999988888 999999
Q ss_pred HHHHhcCCcccceecCCCCceEEEEeeecCC
Q psy1511 80 ILSKVLSSAQELEPLAENCTKVYVWHTRTTD 110 (133)
Q Consensus 80 fL~~L~~~~~~lEpl~~~c~~VlVWHtrte~ 110 (133)
||++|++|+++|||+|+||++|||||||||+
T Consensus 177 fL~~l~~~~~~lEp~a~~c~~VlVWHtrtek 207 (207)
T PF03360_consen 177 FLSQLVLDREDLEPLADNCSKVLVWHTRTEK 207 (207)
T ss_dssp HHHTT---GGGEEE-HHHHTS--EE---B--
T ss_pred HHHHhccChhhcccccCCCCEEEEeeeeccC
Confidence 9999999999999999999999999999986
No 3
>KOG1476|consensus
Probab=100.00 E-value=6e-49 Score=327.39 Aligned_cols=112 Identities=50% Similarity=0.988 Sum_probs=108.6
Q ss_pred cccceeEEeeeeceeecceeeeceeEeCCeEEEEecccCCCCCCCcccceeeeeeccccccccccccccccC--CchhhH
Q psy1511 2 EMRKIKKVGIWPVGLVGGLKVEKPVVQDGKVIGFNSMWAPQRPYPIDMAGFAINLDLMKKNENVKFSFDVQK--GYQESA 79 (133)
Q Consensus 2 EmR~~k~vgvWPVG~vg~~~vEgPvc~~g~Vvgw~~~~~~~R~f~iDmAGFA~n~~lL~~~p~~~f~~~~~~--G~~Es~ 79 (133)
|||+||+||+||||++||+.||||+|+||||+|||+.|++.|||||||||||||+++||++++|.|...|+. ||||+|
T Consensus 201 eiR~v~~~gvWpVg~vgg~~vE~P~v~~~kvvg~~~~w~~~r~f~vdmaGFAvNl~lll~~~~a~f~~~~~~~~G~~E~~ 280 (330)
T KOG1476|consen 201 EIRNVKKFGVWPVGLVGGARVEGPVVNNGKVVGWHTRWEPERPFAVDMAGFAVNLKLLLDPSNAVFKPLCPRGEGYQETC 280 (330)
T ss_pred HHhccceeeeEeeeecCCeeeecceeccCeeEEEEeccccCCCCccchhhheehhhhhccCccccccccCcCCCCCcchh
Confidence 799999999999999999999999999999999999999999999999999999999998899999988876 799999
Q ss_pred HHHHhcCCcccceecCCCCceEEEEeeecCCCCC
Q psy1511 80 ILSKVLSSAQELEPLAENCTKVYVWHTRTTDPTF 113 (133)
Q Consensus 80 fL~~L~~~~~~lEpl~~~c~~VlVWHtrte~~~~ 113 (133)
||+||++|.++|||+|+||++||||||||++|..
T Consensus 281 ~l~~l~~d~~~iEp~~~~c~kILvWhtrte~~~~ 314 (330)
T KOG1476|consen 281 LLEQLGLDLSDIEPLAYECTKILVWHTRTEKPAD 314 (330)
T ss_pred HHHHhcCCHHHccccccccceEEEEEecccCccc
Confidence 9999999999999999999999999999999954
No 4
>PLN02458 transferase, transferring glycosyl groups
Probab=100.00 E-value=7.5e-42 Score=286.58 Aligned_cols=109 Identities=28% Similarity=0.565 Sum_probs=100.2
Q ss_pred cccceeEEeeeeceeec----ceeeeceeEeCCeEEEEeccc---CCCCCCCcccceeeeeecccccccccccc--cccc
Q psy1511 2 EMRKIKKVGIWPVGLVG----GLKVEKPVVQDGKVIGFNSMW---APQRPYPIDMAGFAINLDLMKKNENVKFS--FDVQ 72 (133)
Q Consensus 2 EmR~~k~vgvWPVG~vg----~~~vEgPvc~~g~Vvgw~~~~---~~~R~f~iDmAGFA~n~~lL~~~p~~~f~--~~~~ 72 (133)
|||+||+||+||||++| ++.||||+|++|||+|||+.| .++|+|||||||||||++||| +|+ +|. ...+
T Consensus 222 EmR~ik~vG~WPVGlvg~~~~~~~vEGPvc~~gkVvGWht~w~~~~~~RrfpIDMAGFAfNs~lLw-dP~-rw~Rp~~~~ 299 (346)
T PLN02458 222 EIRDIEVFGTWPMALLSANRNKVIIEGPVCDSSQVIGWHLKKMNNETETRPPIHISSFAFNSSILW-DPE-RWGRPSSVQ 299 (346)
T ss_pred HHhcCceeeecceEEeecccccceeECceecCCeEeEEeccccccCCCCCCCcceeeeeeehhhhc-Chh-hhCCCCCCC
Confidence 89999999999999999 599999999999999999999 588999999999999999999 899 454 5688
Q ss_pred CCchhh-HHHHHh-cCCcccceecC-CCCceEEEEeeecCCCC
Q psy1511 73 KGYQES-AILSKV-LSSAQELEPLA-ENCTKVYVWHTRTTDPT 112 (133)
Q Consensus 73 ~G~~Es-~fL~~L-~~~~~~lEpl~-~~c~~VlVWHtrte~~~ 112 (133)
+|+||| .||+|| +.|+.++|+++ +||++|||||++.....
T Consensus 300 ~~~qeS~~Fv~ql~~~de~q~egipa~~CskVmvWhl~~~~~~ 342 (346)
T PLN02458 300 GTSQNSIKFVKQVALEDETKLKGIPPEDCSKIMLWRLNFPTRT 342 (346)
T ss_pred ccchHHHHHHHHHhhccccccccCCcCCCCEEEEEEeccCCcc
Confidence 899999 999999 45899999996 79999999999988754
No 5
>PF00718 Polyoma_coat: Polyomavirus coat protein This family is a subset of the SCOP family; InterPro: IPR000662 This entry represents the major capsid protein VP1 (viral protein 1) from Polyomaviruses, such as Murine polyomavirus (strain P16 small-plaque) (MPyV) []. Polyomaviruses are dsDNA viruses with no RNA stage in their life cycle. The virus capsid is composed of 72 icosahedral units, each of which is composed of five copies of VP1. The virus attaches to the cell surface by recognition of oligosaccharides terminating in alpha(2,3)-linked sialic acid. The capsid protein VP1 forms a pentamer. The complete capsid is composed of 72 VP1 pentamers, with a minor capsid protein, VP2 or VP3, inserted into the centre of each pentamer like a hairpin. This structure restricts the exposure of internal proteins during viral entry. Polyomavirus coat assembly is rigorously controlled by chaperone-mediated assembly. During viral infection, the heat shock chaperone hsc70 binds VP1 and co-localises it in the nucleus, thereby regulating capsid assembly [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 3NXG_C 3NXD_D 1CN3_C 1SID_D 1VPS_B 1SIE_A 1VPN_A 3S7V_F 3S7X_A 3BWQ_C ....
Probab=42.66 E-value=27 Score=29.75 Aligned_cols=52 Identities=19% Similarity=0.258 Sum_probs=33.1
Q ss_pred ceeEeCCeEEEEecccCCCCCCCcccceeeeee--cccccccccccc-----ccccCCchhhHHHHHhc
Q psy1511 24 KPVVQDGKVIGFNSMWAPQRPYPIDMAGFAINL--DLMKKNENVKFS-----FDVQKGYQESAILSKVL 85 (133)
Q Consensus 24 gPvc~~g~Vvgw~~~~~~~R~f~iDmAGFA~n~--~lL~~~p~~~f~-----~~~~~G~~Es~fL~~L~ 85 (133)
||.|..+.+- - -..||.||..+. ++.|.-=.|.|. +.++.-|.-+.+|.||-
T Consensus 230 GpLCkgd~ly--~--------s~aDi~G~~~~~~~~~~~rgl~Ryf~v~lRkR~vknPYpv~~Ll~~lf 288 (297)
T PF00718_consen 230 GPLCKGDGLY--L--------SCADICGFFTNRSGKQQWRGLPRYFNVTLRKRRVKNPYPVSSLLNSLF 288 (297)
T ss_dssp -EEECTSEEE--E--------EEEEEEEEEEBTTSBEEEEESEEEEEEEEEEEEEE-SSTHHHHHHHHH
T ss_pred cccccCCcEE--E--------EehhccceEecCCCcEeeecCCceEEEEEeccccCCCccHHHHHHHHh
Confidence 7888865442 1 157999999887 455533334554 34566789998888884
No 6
>PHA02614 Major capsid protein VP1; Provisional
Probab=29.34 E-value=54 Score=28.69 Aligned_cols=52 Identities=17% Similarity=0.235 Sum_probs=33.7
Q ss_pred ceeEeCCeEEEEecccCCCCCCCcccceeeeeec--ccccccccccc-----ccccCCchhhHHHHHhc
Q psy1511 24 KPVVQDGKVIGFNSMWAPQRPYPIDMAGFAINLD--LMKKNENVKFS-----FDVQKGYQESAILSKVL 85 (133)
Q Consensus 24 gPvc~~g~Vvgw~~~~~~~R~f~iDmAGFA~n~~--lL~~~p~~~f~-----~~~~~G~~Es~fL~~L~ 85 (133)
||.|..+.+- - -..||+||..+.+ ..|.-=-|+|. +.++.-|.-+.+|.+|-
T Consensus 248 GpLCkgd~Ly--l--------s~aDi~G~~~~~~~~~~~rGlpRyF~v~lRKR~VKNPYpvs~Ll~~lf 306 (363)
T PHA02614 248 GPLCKGDGLY--L--------SCADICGFFTYSSGKQVWRGLPRYFRVTLRKRRVKNPYPVSSLLNSLF 306 (363)
T ss_pred ccCccCCcEE--E--------EhhhcccceeccCCcEEecCCCceeEEEEeeecccCCccHHHHHHHHh
Confidence 7777764432 1 1578999887765 44433345554 34666799999999985
No 7
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=27.06 E-value=60 Score=27.43 Aligned_cols=37 Identities=19% Similarity=0.295 Sum_probs=23.7
Q ss_pred ceeEeC-CeEEEEeccc-CCCCCCCcccceeeeeecccc
Q psy1511 24 KPVVQD-GKVIGFNSMW-APQRPYPIDMAGFAINLDLMK 60 (133)
Q Consensus 24 gPvc~~-g~Vvgw~~~~-~~~R~f~iDmAGFA~n~~lL~ 60 (133)
||++|. |+|+|-++.- .....-...-.|||+-++++.
T Consensus 202 Gpl~n~~G~vIGI~~~~~~~~~~~~~~g~~faIP~~~~~ 240 (351)
T TIGR02038 202 GALINTNGELVGINTASFQKGGDEGGEGINFAIPIKLAH 240 (351)
T ss_pred ceEECCCCeEEEEEeeeecccCCCCccceEEEecHHHHH
Confidence 899985 9999999742 111111223457888887654
No 8
>PRK10139 serine endoprotease; Provisional
Probab=21.53 E-value=91 Score=27.51 Aligned_cols=35 Identities=29% Similarity=0.429 Sum_probs=23.3
Q ss_pred ceeEeC-CeEEEEeccc-CCCCCCCcccceeeeeecccc
Q psy1511 24 KPVVQD-GKVIGFNSMW-APQRPYPIDMAGFAINLDLMK 60 (133)
Q Consensus 24 gPvc~~-g~Vvgw~~~~-~~~R~f~iDmAGFA~n~~lL~ 60 (133)
||++|. |+|+|-++.- .+.. .-.--|||+-+.++-
T Consensus 216 Gpl~n~~G~vIGi~~~~~~~~~--~~~gigfaIP~~~~~ 252 (455)
T PRK10139 216 GALLNLNGELIGINTAILAPGG--GSVGIGFAIPSNMAR 252 (455)
T ss_pred ceEECCCCeEEEEEEEEEcCCC--CccceEEEEEhHHHH
Confidence 899984 9999999853 2221 122347888876654
No 9
>PF07858 LEH: Limonene-1,2-epoxide hydrolase catalytic domain; InterPro: IPR013100 Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism. Limonene-1,2- epoxide hydrolase (LEH) differs from many other epoxide hydrolases in its structure and its novel one-step catalytic mechanism. Its main fold consists of a six-stranded mixed beta-sheet, with three N-terminal alpha helices packed to one side to create a pocket that extends into the protein core. A fourth helix lies in such a way that it acts as a rim to this pocket. Although mainly lined by hydrophobic residues, this pocket features a cluster of polar groups that lie at its deepest point and constitute the enzymes active site []. ; PDB: 2BNG_C 1NWW_A 1NU3_B.
Probab=19.58 E-value=1.3e+02 Score=22.18 Aligned_cols=22 Identities=32% Similarity=0.699 Sum_probs=15.5
Q ss_pred cceeeeceeE-----eCCeEEEEeccc
Q psy1511 18 GGLKVEKPVV-----QDGKVIGFNSMW 39 (133)
Q Consensus 18 g~~~vEgPvc-----~~g~Vvgw~~~~ 39 (133)
|+..++=||| .+|||+.|+..+
T Consensus 88 G~~~~~~~V~GvfEv~dGkI~~WRDYF 114 (125)
T PF07858_consen 88 GPLRIQFPVCGVFEVRDGKITLWRDYF 114 (125)
T ss_dssp TTEEEEEEEEEEEEEETTEEEEEEEE-
T ss_pred CCeEEEEEEEEEEEEECCEEEEEeccC
Confidence 4456666665 379999999876
No 10
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=16.66 E-value=1.3e+02 Score=25.93 Aligned_cols=36 Identities=33% Similarity=0.451 Sum_probs=21.4
Q ss_pred ceeEeC-CeEEEEecccCCCCCCCcccceeeeeecccc
Q psy1511 24 KPVVQD-GKVIGFNSMWAPQRPYPIDMAGFAINLDLMK 60 (133)
Q Consensus 24 gPvc~~-g~Vvgw~~~~~~~R~f~iDmAGFA~n~~lL~ 60 (133)
||++|. |+|+|-++.-....--.. =.|||+-+.++.
T Consensus 183 Gpl~n~~G~viGI~~~~~~~~g~~~-g~~faiP~~~~~ 219 (428)
T TIGR02037 183 GPLVNLRGEVIGINTAIYSPSGGNV-GIGFAIPSNMAK 219 (428)
T ss_pred CceECCCCeEEEEEeEEEcCCCCcc-ceEEEEEhHHHH
Confidence 799985 999999875321100011 237887765543
Done!