YRC Public Data Repository - Protein Structure Prediction

Protein:	TRPB_HELPY
Organism:	Helicobacter pylori 26695
Length:	393 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for TRPB_HELPY.

Description	E-value	Query Range	Subject Range
gi\|86605059 - gi\|86605059\|ref\|YP_473822.1\| tryptophan synthase, beta subunit [Cyanobacteria bacterium Yellowstone ... gi\|86553601, gi\|... - gi\|86605059\|ref\|YP_473822.1\| tryptophan synthase subunit beta [Synechococcus sp. JA-3-3Ab], gi\|86553...	412.0	[0..2]	[390..4]
gi\|57157621 - gi\|57157621\|dbj\|BAD83779.1\| tryptophan synthase beta subunit [Polygonum tinctorium]	411.0	[0..2]	[389..80]
TRPB_HELPJ - Tryptophan synthase beta chain OS=Helicobacter pylori (strain J99 / ATCC 700824) GN=trpB PE=3 SV=1 gi\|7437012 - gi\|7437012\|pir\|\|C71836 tryptophan synthase beta chain - Helicobacter pylori (strain J99)	410.0	[0..1]	[393..1]
gi\|145588957, gi... - gi\|145588957\|ref\|YP_001155554.1\| tryptophan synthase subunit beta [Polynucleobacter necessarius subs...	410.0	[0..2]	[391..6]
gi\|107837432, gi... - gi\|108563659\|ref\|YP_627975.1\| tryptophan synthase subunit beta [Helicobacter pylori HPAG1], gi\|10783...	408.0	[0..1]	[393..1]
TRPB_AZOVD - Tryptophan synthase beta chain OS=Azotobacter vinelandii (strain DJ / ATCC BAA-1303) GN=trpB PE=3 SV... gi\|67154984, gi\|... - gi\|67154984\|ref\|ZP_00416729.1\| Tryptophan synthase, beta chain [Azotobacter vinelandii AvOP], ref\|ZP...	407.0	[0..2]	[393..11]
gi\|71739840, gi\|... - gi\|71839674\|ref\|ZP_00679418.1\| Tryptophan synthase, beta chain [Pelobacter propionicus DSM 2379], gi...	407.0	[0..2]	[389..5]
TRPB_TRIEI - Tryptophan synthase beta chain OS=Trichodesmium erythraeum (strain IMS101) GN=trpB PE=3 SV=1	407.0	[0..2]	[390..15]
TRPB_THETN - Tryptophan synthase beta chain OS=Thermoanaerobacter tengcongensis GN=trpB PE=3 SV=1 TRPB_CALS4 - Tryptophan synthase beta chain OS=Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 152...	406.0	[0..3]	[392..1]
gi\|77970857, gi\|... - gi\|78062972\|ref\|YP_372880.1\| tryptophan synthase subunit beta [Burkholderia sp. 383], gi\|77970857\|gb...	406.0	[0..2]	[392..6]

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Predicted Domain #1

Region A:
Residues: [1-393]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKKAYFGEF GGSFVSELLV PALRELEQAF DACLKDEKFQ KEYFRLLKDF VGRPSPLTLC  60
   61 QNIVSNPKVK LYLKREDLIH GGAHKTNQAL GQALLAKKMG KTRIIAETGA GQHGVATAIA 120
  121 CALLNLKCVV FMGSKDIKRQ EMNVFRMHLL GAEVREVNSG SATLKDAVNE ALRDWASSYK 180
  181 DTHYLLGTAA GPHPYPTMVK TFQKMIGDEV KSQILEKENR LPDYVIACVG GGSNAIGIFS 240
  241 AFLNDKEVKL IGVEPAGLGL ETNKHGATLN KGRVGILHGN KTYLLQDDEG QIAESHSISA 300
  301 GLDYPGVGPE HSYLKESGRA VYESASDAEA LEAFKLLCQK EGIIPALESS HALAYALKLA 360
  361 QKCEEESIIV VNLSGRGDKD LSTVYNALKG GLK

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Detection Method:	PSI-BLAST
Confidence:	110.0
Match:	1v8zA
Description:	X-ray crystal structure of the Tryptophan Synthase b2 Subunit from Hyperthermophile, Pyrococcus furiosus
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
tryptophan synthase activity	3.77857340461162	bayes_pls_golite062009
catalytic activity	2.76038225023173	bayes_pls_golite062009
lyase activity	2.54165185299539	bayes_pls_golite062009
carbon-oxygen lyase activity, acting on phosphates	1.82148750304597	bayes_pls_golite062009
cysteine synthase activity	1.54736143994982	bayes_pls_golite062009
carbon-oxygen lyase activity	1.52790731142158	bayes_pls_golite062009
ammonia-lyase activity	0.943946746392831	bayes_pls_golite062009
threonine synthase activity	0.86525519885835	bayes_pls_golite062009
carbon-nitrogen lyase activity	0.8463142805916	bayes_pls_golite062009
L-threonine ammonia-lyase activity	0.57533596285038	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: