YRC Public Data Repository - Protein Structure Prediction

Protein:	GLYA_ECOLI
Organism:	Escherichia coli
Length:	417 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 GLYA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|77958563, gi\|... - gi\|77958563\|ref\|ZP_00822594.1\| COG0112: Glycine/serine hydroxymethyltransferase [Yersinia bercovieri...	437.0	[0..1]	[417..1]
gi\|238796764, gi... - gi\|77963401\|ref\|ZP_00827211.1\| COG0112: Glycine/serine hydroxymethyltransferase [Yersinia mollaretii...	437.0	[0..1]	[417..1]
GLYA_SHELP - Serine hydroxymethyltransferase OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) GN=glyA PE=3 SV=...	434.0	[0..1]	[417..1]
GLYA_SHEB9 - Serine hydroxymethyltransferase OS=Shewanella baltica (strain OS195) GN=glyA PE=3 SV=1	434.0	[0..1]	[417..1]
GLYA_SHEB5 - Serine hydroxymethyltransferase OS=Shewanella baltica (strain OS155 / ATCC BAA-1091) GN=glyA PE=3 SV...	433.0	[0..1]	[417..1]
GLYA_SHEAM - Serine hydroxymethyltransferase OS=Shewanella amazonensis (strain ATCC BAA-1098 / SB2B) GN=glyA PE=3...	432.0	[0..1]	[417..1]
gi\|167398564, gi... - gi\|167398564\|ref\|ZP_02304088.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Antiqua str.... gi\|229838491, gi... - gi\|229838491\|ref\|ZP_04458650.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Orientalis s... gi\|166212419, gi... - gi\|166212419\|ref\|ZP_02238454.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Antiqua str.... gi\|229701301, gi... - gi\|229895495\|ref\|ZP_04510666.1\| serine hydroxymethyltransferase [Yersinia pestis Pestoides A], gi\|22... gi\|167423308, gi... - gi\|167423308\|ref\|ZP_02315061.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Mediaevalis ... gi\|229899061, gi... - gi\|229899061\|ref\|ZP_04514205.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Orientalis s... gi\|167421417, gi... - gi\|167421417\|ref\|ZP_02313170.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Orientalis s... GLYA_YERPB - Serine hydroxymethyltransferase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=glyA PE... GLYA_YERPY - Serine hydroxymethyltransferase OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=glyA P... GLYA_YERPG - Serine hydroxymethyltransferase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=glyA PE=3 SV=1 gi\|149365366, gi... - gi\|149365366\|ref\|ZP_01887401.1\| serine hydroxymethyltransferase [Yersinia pestis CA88-4125], gi\|1492... GLYA_YERPP - Serine hydroxymethyltransferase OS=Yersinia pestis (strain Pestoides F) GN=glyA PE=3 SV=1 gi\|89105653, gi\|... - gi\|89105653\|ref\|ZP_01178168.1\| COG0112: Glycine/serine hydroxymethyltransferase [Yersinia pestis bio... gi\|165992449, gi... - gi\|166008067\|ref\|ZP_02228965.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Antiqua str.... gi\|165919744, gi... - gi\|165928237\|ref\|ZP_02224069.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Orientalis s... GLYA_YERPA - Serine hydroxymethyltransferase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=glyA PE=3 SV=1 GLYA_YERPN - Serine hydroxymethyltransferase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=glyA PE=3 SV=1 GLYA_YERPS - Pyridoxal-phosphate-dependent serine hydroxymethyltransferase OS=Yersinia pseudotuberculosis GN=glyA... gi\|45442328, gi\|... - gi\|45442328\|ref\|NP_993867.1\| serine hydroxymethyltransferase [Yersinia pestis biovar Microtus str. 9... gi\|21958089, gi\|... - gi\|22125221\|ref\|NP_668644.1\| serine hydroxymethyltransferase [Yersinia pestis KIM], gi\|21958089\|gb\|A... gi\|218929966, gi... - gi\|218929966\|ref\|YP_002347841.1\| serine hydroxymethyltransferase [Yersinia pestis CO92], gi\|16123098... GLYA_YERPS - Serine hydroxymethyltransferase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=glyA P... GLYA_YERPE - Serine hydroxymethyltransferase OS=Yersinia pestis GN=glyA PE=3 SV=1	432.0	[0..1]	[417..1]
GLYA_SHESM - Serine hydroxymethyltransferase OS=Shewanella sp. (strain MR-4) GN=glyA PE=3 SV=1	432.0	[0..1]	[417..1]
GLYA1_ERWCT - Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 1 OS=Erwinia carotovora subsp. atrosep... GLYA1_PECAS - Serine hydroxymethyltransferase 1 OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) G...	431.0	[0..1]	[417..1]
GLYA_SHESA - Serine hydroxymethyltransferase OS=Shewanella sp. (strain ANA-3) GN=glyA PE=3 SV=1 GLYA_SHESR - Serine hydroxymethyltransferase OS=Shewanella sp. (strain MR-7) GN=glyA PE=3 SV=1	431.0	[0..1]	[417..1]

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Predicted Domain #1

Region A:
Residues: [1-417]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLKREMNIAD YDAELWQAME QEKVRQEEHI ELIASENYTS PRVMQAQGSQ LTNKYAEGYP  60
   61 GKRYYGGCEY VDIVEQLAID RAKELFGADY ANVQPHSGSQ ANFAVYTALL EPGDTVLGMN 120
  121 LAHGGHLTHG SPVNFSGKLY NIVPYGIDAT GHIDYADLEK QAKEHKPKMI IGGFSAYSGV 180
  181 VDWAKMREIA DSIGAYLFVD MAHVAGLVAA GVYPNPVPHA HVVTTTTHKT LAGPRGGLIL 240
  241 AKGGSEELYK KLNSAVFPGG QGGPLMHVIA GKAVALKEAM EPEFKTYQQQ VAKNAKAMVE 300
  301 VFLERGYKVV SGGTDNHLFL VDLVDKNLTG KEADAALGRA NITVNKNSVP NDPKSPFVTS 360
  361 GIRVGTPAIT RRGFKEAEAK ELAGWMCDVL DSINDEAVIE RIKGKVLDIC ARYPVYA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	116.0
Match:	1dfoA
Description:	Serine hydroxymethyltransferase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
L-aspartate:2-oxoglutarate aminotransferase activity	3.359406422625	bayes_pls_golite062009
glycine dehydrogenase (decarboxylating) activity	3.2128372762799	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor	3.2128372762799	bayes_pls_golite062009
transferase activity	2.59075614411581	bayes_pls_golite062009
catalytic activity	2.29878871754893	bayes_pls_golite062009
transcription regulator activity	1.67701710033155	bayes_pls_golite062009
DNA binding	1.4774443071095	bayes_pls_golite062009
nucleic acid binding	1.39741122443159	bayes_pls_golite062009
transferase activity, transferring nitrogenous groups	1.28316822767388	bayes_pls_golite062009
transaminase activity	1.24990480711889	bayes_pls_golite062009
transferase activity, transferring acyl groups	1.19150094103499	bayes_pls_golite062009
transcription factor activity	1.15775909410582	bayes_pls_golite062009
binding	1.09053123792737	bayes_pls_golite062009
O-phospho-L-serine:2-oxoglutarate aminotransferase activity	0.994935084630764	bayes_pls_golite062009
structural molecule activity	0.754675308623467	bayes_pls_golite062009
methyltransferase activity	0.681623261233707	bayes_pls_golite062009
vitamin binding	0.66463470119531	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	0.60304280865376	bayes_pls_golite062009
5-aminolevulinate synthase activity	0.54326874956263	bayes_pls_golite062009
L-allo-threonine aldolase activity	0.500744432308415	bayes_pls_golite062009
glycine hydroxymethyltransferase activity	0.271623203801431	bayes_pls_golite062009
pyridoxal phosphate binding	0.16957228630576	bayes_pls_golite062009
vitamin B6 binding	0.16957228630576	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: