Query psy4378
Match_columns 136
No_of_seqs 17 out of 19
Neff 3.2
Searched_HMMs 46136
Date Sat Aug 17 00:00:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4378.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4378hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05404 TRAP-delta: Transloco 5.9 5.5E+02 0.012 20.8 2.6 29 4-32 114-142 (167)
2 cd09001 GH43_XYL_2 Glycosyl hy 5.7 3.7E+02 0.0081 21.5 1.5 31 11-41 18-48 (269)
3 PF07999 RHSP: Retrotransposon 5.4 3.4E+02 0.0074 24.6 1.3 20 18-37 12-31 (439)
4 cd08985 GH43_6 Glycosyl hydrol 5.0 5.3E+02 0.011 20.7 2.0 37 5-41 4-44 (265)
5 cd08989 GH43_XYL Glycosyl hydr 4.8 5.2E+02 0.011 20.7 1.8 31 9-39 13-43 (269)
6 PF13121 DUF3976: Domain of un 4.7 2.8E+02 0.006 17.9 0.2 8 47-54 11-18 (41)
7 PF13533 Biotin_lipoyl_2: Biot 4.4 4.8E+02 0.01 16.1 1.1 13 36-48 22-34 (50)
8 PF04616 Glyco_hydro_43: Glyco 4.3 4.3E+02 0.0092 20.5 1.0 28 12-39 18-45 (286)
9 PRK06748 hypothetical protein; 4.2 1E+03 0.022 16.8 2.8 10 36-45 24-33 (83)
10 PF07697 7TMR-HDED: 7TM-HD ext 3.6 4E+02 0.0086 20.0 0.2 16 38-53 193-208 (222)
No 1
>PF05404 TRAP-delta: Translocon-associated protein, delta subunit precursor (TRAP-delta); InterPro: IPR008855 This family consists of several eukaryotic translocon-associated protein, delta subunit precursors (TRAP-delta or SSR-delta). The exact function of this protein is unknown [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=5.95 E-value=5.5e+02 Score=20.80 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=25.8
Q ss_pred CCCCCcccCCceeEEEeeccccccCCccc
Q psy4378 4 QNGDSIDDVNTEYTLVSTHANETKGMRQY 32 (136)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (136)
.||++++.|..-+|+.-.|..-.+||.+.
T Consensus 114 R~ged~~~vkplftV~v~h~Ga~~gpwV~ 142 (167)
T PF05404_consen 114 RNGEDVSSVKPLFTVTVNHPGAYKGPWVN 142 (167)
T ss_pred hcCCCcccCCccEEEEEecCccccCCCch
Confidence 47899999999999999999999998754
No 2
>cd09001 GH43_XYL_2 Glycosyl hydrolase family 43, beta-D-xylosidase. This glycosyl hydrolase family 43 (GH43) includes mostly enzymes that have been characterized to have beta-1,4-xylosidase (beta-D-xylosidase;xylan 1,4-beta-xylosidase; EC 3.2.1.37) activity. They are part of an array of hemicellulases that are involved in the final breakdown of plant cell-wall whereby they degrade xylan. They hydrolyze beta-1,4 glycosidic bonds between two xylose units in short xylooligosaccharides. These are inverting enzymes (i.e. they invert the stereochemistry of the anomeric carbon atom of the substrate) that have an aspartate as the catalytic general base, a glutamate as the catalytic general acid and another aspartate that is responsible for pKa modulation and orienting the catalytic acid. A common structural feature of GH43 enzymes is a 5-bladed beta-propeller domain that contains the catalytic acid and catalytic base. A long V-shaped groove, partially enclosed at one end, forms a single extend
Probab=5.66 E-value=3.7e+02 Score=21.54 Aligned_cols=31 Identities=26% Similarity=0.354 Sum_probs=24.8
Q ss_pred cCCceeEEEeeccccccCCcccccCcccccC
Q psy4378 11 DVNTEYTLVSTHANETKGMRQYEDNTLVKED 41 (136)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~e~~~lvke~ 41 (136)
-.+..|-+++|+.....|.+.+.+.+|++=.
T Consensus 18 ~~~~~yY~~~t~~~~~~gi~v~~S~Dl~~W~ 48 (269)
T cd09001 18 RVGDDYYMVSTTMHYSPGAPILHSKDLVNWE 48 (269)
T ss_pred EECCEEEEEECCcccCCCCEEEEcccccCCe
Confidence 3466799999987767899999999988644
No 3
>PF07999 RHSP: Retrotransposon hot spot protein; InterPro: IPR006518 These sequences are full-length and part-length members of the RHS (retrotransposon hot spot) family in Trypanosoma brucei and Trypanosoma cruzi. Members of this family are frequently interrupted by non-LTR retrotransposons inserted at exactly the same relative position.
Probab=5.43 E-value=3.4e+02 Score=24.60 Aligned_cols=20 Identities=30% Similarity=0.321 Sum_probs=16.5
Q ss_pred EEeeccccccCCcccccCcc
Q psy4378 18 LVSTHANETKGMRQYEDNTL 37 (136)
Q Consensus 18 ~~~~~~~~~~~~~~~e~~~l 37 (136)
.+|.|+.+..||+++++.|+
T Consensus 12 V~~~~~~~~lGM~V~~G~p~ 31 (439)
T PF07999_consen 12 VVSGYDGEPLGMKVVEGEPP 31 (439)
T ss_pred EEEEcCCCcceEEEecCcCC
Confidence 46889999999999987543
No 4
>cd08985 GH43_6 Glycosyl hydrolase family 43. This glycosyl hydrolase family 43 (GH43) includes enzymes with beta-1,4-xylosidase (xylan 1,4-beta-xylosidase; EC 3.2.1.37), beta-1,3-xylosidase (EC 3.2.1.-), alpha-L-arabinofuranosidase (EC 3.2.1.55), arabinanase (EC 3.2.1.99), xylanase (EC 3.2.1.8), endo-alpha-L-arabinanase and galactan 1,3-beta-galactosidase (EC 3.2.1.145) activities. These are inverting enzymes (i.e. they invert the stereochemistry of the anomeric carbon atom of the substrate) that have an aspartate as the catalytic general base, a glutamate as the catalytic general acid and another aspartate that is responsible for pKa modulation and orienting the catalytic acid. Many of the enzymes in this family display both alpha-L-arabinofuranosidase and beta-D-xylosidase activity using aryl-glycosides as substrates. A common structural feature of GH43 enzymes is a 5-bladed beta-propeller domain that contains the catalytic acid and catalytic base. A long V-shaped groove, partially e
Probab=4.99 E-value=5.3e+02 Score=20.73 Aligned_cols=37 Identities=22% Similarity=0.292 Sum_probs=28.5
Q ss_pred CCCCcccCCceeEEEeeccc----cccCCcccccCcccccC
Q psy4378 5 NGDSIDDVNTEYTLVSTHAN----ETKGMRQYEDNTLVKED 41 (136)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~e~~~lvke~ 41 (136)
-|-+|--++..|-+..||.. ...|.+.|.+.+|++=.
T Consensus 4 h~~~i~~~~~~yY~ygs~~~~~~~~~~gi~~~sS~DLvnW~ 44 (265)
T cd08985 4 HGGGILKVGGTYYWYGENKGGGDTAFGGVSCYSSTDLVNWT 44 (265)
T ss_pred ccCceEEECCEEEEEEEecCCCCcccccEEEEECCCCccce
Confidence 35566667778999999974 55899999999997643
No 5
>cd08989 GH43_XYL Glycosyl hydrolase family 43, beta-D-xylosidase. This glycosyl hydrolase family 43 (GH43) includes mostly enzymes that have been characterized to have beta-1,4-xylosidase (beta-D-xylosidase;xylan 1,4-beta-xylosidase; EC 3.2.1.37) activity. They are part of an array of hemicellulases that are involved in the final breakdown of plant cell-wall whereby they degrade xylan. They hydrolyze beta-1,4 glycosidic bonds between two xylose units in short xylooligosaccharides. These are inverting enzymes (i.e. they invert the stereochemistry of the anomeric carbon atom of the substrate) that have an aspartate as the catalytic general base, a glutamate as the catalytic general acid and another aspartate that is responsible for pKa modulation and orienting the catalytic acid. A common structural feature of GH43 enzymes is a 5-bladed beta-propeller domain that contains the catalytic acid and catalytic base. A long V-shaped groove, partially enclosed at one end, forms a single extended
Probab=4.77 E-value=5.2e+02 Score=20.73 Aligned_cols=31 Identities=19% Similarity=0.238 Sum_probs=24.4
Q ss_pred cccCCceeEEEeeccccccCCcccccCcccc
Q psy4378 9 IDDVNTEYTLVSTHANETKGMRQYEDNTLVK 39 (136)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~e~~~lvk 39 (136)
|--++..|-+++|+.+...|.+.+.+.+|++
T Consensus 13 ii~~~~~yY~~~t~~~~~~g~~~~~S~DL~~ 43 (269)
T cd08989 13 IIRAGDDYYMASSTFEWFPGVQIHHSTDLVN 43 (269)
T ss_pred EEEECCeEEEEECccccCCCcEEEECCccCC
Confidence 3345677888888877778999999999985
No 6
>PF13121 DUF3976: Domain of unknown function (DUF3976)
Probab=4.71 E-value=2.8e+02 Score=17.90 Aligned_cols=8 Identities=63% Similarity=0.825 Sum_probs=3.4
Q ss_pred ecCcceee
Q psy4378 47 EDNTLVKE 54 (136)
Q Consensus 47 ~~n~LVke 54 (136)
+||.|+|+
T Consensus 11 ~~ntltkr 18 (41)
T PF13121_consen 11 KDNTLTKR 18 (41)
T ss_pred CCCeeehh
Confidence 34444443
No 7
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=4.39 E-value=4.8e+02 Score=16.10 Aligned_cols=13 Identities=31% Similarity=0.330 Sum_probs=5.7
Q ss_pred cccccCCcceeec
Q psy4378 36 TLVKEDSTLVKED 48 (136)
Q Consensus 36 ~lvke~~~lVk~~ 48 (136)
..|+.|++|+.=+
T Consensus 22 ~~VkkGd~L~~ld 34 (50)
T PF13533_consen 22 QQVKKGDVLLVLD 34 (50)
T ss_pred CEEcCCCEEEEEC
Confidence 3444444444433
No 8
>PF04616 Glyco_hydro_43: Glycosyl hydrolases family 43; InterPro: IPR006710 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. Glycoside hydrolase family 43 GH43 from CAZY includes enzymes with the following activities, beta-xylosidase (3.2.1.37 from EC), alpha-L-arabinofuranosidase (3.2.1.55 from EC); arabinanase (3.2.1.99 from EC), and xylanase (3.2.1.8 from EC).; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3KST_B 1UV4_A 1YRZ_A 1YIF_B 3NQH_A 3QED_D 3QEE_A 3QEF_B 1YI7_A 1Y7B_B ....
Probab=4.33 E-value=4.3e+02 Score=20.48 Aligned_cols=28 Identities=25% Similarity=0.386 Sum_probs=23.0
Q ss_pred CCceeEEEeeccccccCCcccccCcccc
Q psy4378 12 VNTEYTLVSTHANETKGMRQYEDNTLVK 39 (136)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~e~~~lvk 39 (136)
.+..|-++.|+.....|++.+.+.+|++
T Consensus 18 ~~~~yY~~~t~~~~~~~i~v~~S~DL~~ 45 (286)
T PF04616_consen 18 FGDGYYLYGTTDPEGPGIPVWSSKDLVN 45 (286)
T ss_dssp ETTEEEEEEEEBTCESBEEEEEESSSSS
T ss_pred ECCEEEEEEEcCCCCCeEEEEECCCCcc
Confidence 3445888888888889999999999974
No 9
>PRK06748 hypothetical protein; Validated
Probab=4.20 E-value=1e+03 Score=16.83 Aligned_cols=10 Identities=30% Similarity=0.189 Sum_probs=4.0
Q ss_pred cccccCCcce
Q psy4378 36 TLVKEDSTLV 45 (136)
Q Consensus 36 ~lvke~~~lV 45 (136)
+.|++|++++
T Consensus 24 D~V~~gd~l~ 33 (83)
T PRK06748 24 SYVYEWEKLA 33 (83)
T ss_pred CEECCCCEEE
Confidence 3344444443
No 10
>PF07697 7TMR-HDED: 7TM-HD extracellular; InterPro: IPR011624 This entry represents the extracellular domain of the 7TM-HD (7TM Receptors with HD hydrolase) protein family []. These proteins are known or predicted, to posses metal-dependent phospohydrolase activity.
Probab=3.56 E-value=4e+02 Score=20.05 Aligned_cols=16 Identities=19% Similarity=0.451 Sum_probs=9.9
Q ss_pred cccCCcceeecCccee
Q psy4378 38 VKEDSTLVKEDNTLVK 53 (136)
Q Consensus 38 vke~~~lVk~~n~LVk 53 (136)
|++|+-+|++|...+.
T Consensus 193 V~~Ge~IV~kGe~VT~ 208 (222)
T PF07697_consen 193 VKKGEVIVRKGEIVTE 208 (222)
T ss_pred ccCCCEEecCCcEeCH
Confidence 5666666666665543
Done!