YRC Public Data Repository - Protein Structure Prediction

Protein:	TRPB_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	396 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_SHEON.

Description	E-value	Query Range	Subject Range
gi\|71739840, gi\|... - gi\|71839674\|ref\|ZP_00679418.1\| Tryptophan synthase, beta chain [Pelobacter propionicus DSM 2379], gi...	403.0	[0..1]	[394..1]
gi\|145588957, gi... - gi\|145588957\|ref\|YP_001155554.1\| tryptophan synthase subunit beta [Polynucleobacter necessarius subs...	400.0	[0..4]	[392..5]
gi\|57157621 - gi\|57157621\|dbj\|BAD83779.1\| tryptophan synthase beta subunit [Polygonum tinctorium]	400.0	[0..4]	[392..79]
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...	399.0	[0..4]	[394..3]
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...	399.0	[0..6]	[395..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...	398.0	[0..2]	[396..8]
TRPB_THEPX - Tryptophan synthase beta chain OS=Thermoanaerobacter sp. (strain X514) GN=trpB PE=3 SV=1 gi\|242258267, gi... - gi\|242258267\|ref\|ZP_04803088.1\| tryptophan synthase, beta subunit [Thermoanaerobacter sp. X513], gi\|...	397.0	[0..6]	[395..1]
gi\|241904622, gi... - gi\|241904622\|ref\|ZP_04789303.1\| tryptophan synthase, beta subunit [Thermoanaerobacter brockii subsp.... TRPB_THEP3 - Tryptophan synthase beta chain OS=Thermoanaerobacter pseudethanolicus (strain ATCC 33223 / 39E) GN=t...	397.0	[0..6]	[395..1]
gi\|86608975 - gi\|86608975\|ref\|YP_477737.1\| tryptophan synthase, beta subunit [Cyanobacteria bacterium Yellowstone ... TRPB_SYNJB - Tryptophan synthase beta chain OS=Synechococcus sp. (strain JA-2-3B'a(2-13)) GN=trpB PE=3 SV=1	397.0	[0..4]	[394..22]
TRPB_PSEPF - Tryptophan synthase beta chain OS=Pseudomonas fluorescens (strain Pf0-1) GN=trpB PE=3 SV=1	396.0	[0..2]	[392..12]

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Predicted Domain #1

Region A:
Residues: [1-396]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSQLKLNPYF GEYGGMYVPQ ILVPALKQLE SAFVEAQTDE SFQAEFTDLL KNYAGRPTAL  60
   61 TLTRNLSPNP MVKIYLKRED LLHGGAHKTN QVLGQALLAK RMGKKEIIAE TGAGQHGVAT 120
  121 ALACALLGLK CKVYMGAKDV ARQSPNVFRM RLMGAEVIPV TSGSATLKDA CNEAMRDWSG 180
  181 SYEKAHYLLG TAAGPHPFPT IVREFQRIIG EETKKQILER EGRLPDAVIA CVGGGSNAIG 240
  241 MFADFIDETN VELIGVEPAG KGIDTHMHGA PLKHGKTGIF FGMKAPLMQD SEGQIEESYS 300
  301 ISAGLDFPSV GPQHAHLNAI GRARYESATD DEALEAFQLL ARCEGIIPAL ESAHALAYAL 360
  361 RLAKECTKET ILVVNLSGRG DKDIFTVSDI LNGKEE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	107.0
Match:	1a50B
Description:	Tryptophan synthase, beta-subunit
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: