YRC Public Data Repository - Protein Structure Prediction

Protein:	GCSP_ECOLI
Organism:	Escherichia coli
Length:	957 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 GCSP_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|89093021, gi\|... - gi\|89093021\|ref\|ZP_01165972.1\| glycine dehydrogenase [Oceanospirillum sp. MED92], gi\|89082671\|gb\|EAR...	787.0	[0..5]	[956..9]
GCSP_ECO55 - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli (strain 55989 / EAEC) GN=gcvP PE=3 SV=1 GCSP_ECOSE - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli (strain SE11) GN=gcvP PE=3 SV=1 gi\|75227221, gi\|... - gi\|75227221\|ref\|ZP_00714021.1\| COG1003: Glycine cleavage system protein P (pyridoxal-binding), C-ter... gi\|194426246, gi... - gi\|75212482\|ref\|ZP_00712506.1\| COG1003: Glycine cleavage system protein P (pyridoxal-binding), C-ter...	773.0	[0..1]	[957..1]
gi\|75258503, gi\|... - gi\|75258503\|ref\|ZP_00729925.1\| COG1003: Glycine cleavage system protein P (pyridoxal-binding), C-ter...	773.0	[0..1]	[957..1]
gi\|75515314, gi\|... - gi\|75515314\|ref\|ZP_00737498.1\| COG1003: Glycine cleavage system protein P (pyridoxal-binding), C-ter...	773.0	[0..1]	[957..1]
GCSP_ECO45 - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=gcvP PE=3... gi\|237706453, gi... - gi\|237706453\|ref\|ZP_04536934.1\| glycine dehydrogenase [Escherichia sp. 3_2_53FAA], gi\|226899493\|gb\|E... GCSP_ECOUT - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli (strain UTI89 / UPEC) GN=gcvP PE=3 SV=1	772.0	[0..1]	[957..1]
gi\|227888452, gi... - gi\|227888452\|ref\|ZP_04006257.1\| glycine dehydrogenase [Escherichia coli 83972], gi\|227834721\|gb\|EEJ4... GCSP_ECOL6 - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPE... GCSP_ECOL6 - Glycine dehydrogenase [decarboxylating] OS=Escherichia coli O6 GN=gcvP PE=3 SV=3	772.0	[0..1]	[957..1]
gi\|882433\|gb\|AAA... - ORF_f957 gi\|882433 - gi\|882433\|gb\|AAA69071.1\| ORF_f957	772.0	[0..1]	[957..1]
GCSP_SHIDS - Glycine dehydrogenase (decarboxylating) OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=gcvP PE...	772.0	[0..1]	[957..1]
GCSP_ECOHS - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli O9:H4 (strain HS) GN=gcvP PE=3 SV=1	772.0	[0..1]	[957..1]
GCSP_ECO57 - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli O157:H7 GN=gcvP PE=3 SV=3 gi\|209760506, gi... - pir\|\|F91100 glycine decarboxylase [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509... GCSP_ECO5E - Glycine dehydrogenase (decarboxylating) OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=gcvP P... gi\|13363246, gi\|... - gi\|15833028\|ref\|NP_311801.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. Sakai], gi\|1336324... gi\|208740265, gi... - gi\|208820142\|ref\|ZP_03260462.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4042], gi\|208... gi\|208812935, gi... - gi\|208812935\|ref\|ZP_03254264.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4045], gi\|208... gi\|208728690, gi... - gi\|208808889\|ref\|ZP_03251226.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4206], gi\|208... gi\|217320247, gi... - gi\|217327880\|ref\|ZP_03443963.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. TW14588], gi\|21... gi\|187768783, gi... - gi\|187768783\|gb\|EDU32627.1\| glycine dehydrogenase (decarboxylating) [Escherichia coli O157:H7 str. E... gi\|189363737, gi... - gi\|189363737\|gb\|EDU82156.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4486], gi\|1687668... gi\|254594252, gi... - gi\|254794852\|ref\|YP_003079689.1\| glycine decarboxylase, PLP-dependent, subunit (protein P) of glycin... gi\|189369402, gi... - gi\|189369402\|gb\|EDU87818.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4501], gi\|1687600... gi\|189358686, gi... - gi\|189358686\|gb\|EDU77105.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4401], gi\|1687538... gi\|195936521 - gi\|195936521\|ref\|ZP_03081903.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4024] gi\|189377635, gi... - gi\|189377635\|gb\|EDU96051.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC508], gi\|16880003... gi\|189374044, gi... - gi\|189374044\|gb\|EDU92460.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC869], gi\|16878574... gi\|189003157, gi... - gi\|189003157\|gb\|EDU72143.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4076], gi\|1687789... gi\|188017909, gi... - gi\|188017909\|gb\|EDU56031.1\| glycine dehydrogenase [Escherichia coli O157:H7 str. EC4113], gi\|1687476...	772.0	[0..1]	[957..1]

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Predicted Domain #1

Region A:
Residues: [1-450]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTQTLSQLEN SGAFIERHIG PDAAQQQEML NAVGAQSLNA LTGQIVPKDI QLATPPQVGA  60
   61 PATEYAALAE LKAIASRNKR FTSYIGMGYT AVQLPPVILR NMLENPGWYT AYTPYQPEVS 120
  121 QGRLEALLNF QQVTLDLTGL DMASASLLDE ATAAAEAMAM AKRVSKLKNA NRFFVASDVH 180
  181 PQTLDVVRTR AETFGFEVIV DDAQKVLDHQ DVFGVLLQQV GTTGEIHDYT ALISELKSRK 240
  241 IVVSVAADIM ALVLLTAPGK QGADIVFGSA QRFGVPMGYG GPHAAFFAAK DEYKRSMPGR 300
  301 IIGVSKDAAG NTALRMAMQT REQHIRREKA NSNICTSQVL LANIASLYAV YHGPVGLKRI 360
  361 ANRIHRLTDI LAAGLQQKGL KLRHAHYFDT LCVEVADKAG VLTRAEAAEI NLRSDILNAV 420
  421 GITLDETTTR ENVMQLFNVL LGDNHGLDID

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	67.69897
Match:	1wytA
Description:	Crystal structure of glycine decarboxylase (P-protein) of the glycine cleavage system, in apo form
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glycine dehydrogenase (decarboxylating) activity	8.00572280567771	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor	8.00572280567771	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors	3.14486270422678	bayes_pls_golite062009
catalytic activity	2.29878871754893	bayes_pls_golite062009
transferase activity	1.44093490824786	bayes_pls_golite062009
transferase activity, transferring nitrogenous groups	1.28316822767388	bayes_pls_golite062009
transaminase activity	1.24990480711889	bayes_pls_golite062009
methyltransferase activity	0.681623261233707	bayes_pls_golite062009
L-aspartate:2-oxoglutarate aminotransferase activity	0.619695949258279	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	0.60304280865376	bayes_pls_golite062009
glycine hydroxymethyltransferase activity	0.271623203801431	bayes_pls_golite062009
O-phospho-L-serine:2-oxoglutarate aminotransferase activity	0.234399054481664	bayes_pls_golite062009
pyridoxal phosphate binding	0.16957228630576	bayes_pls_golite062009
vitamin B6 binding	0.16957228630576	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [451-957]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TLDKDVAHDS RSIQPAMLRD DEILTHPVFN RYHSETEMMR YMHSLERKDL ALNQAMIPLG  60
   61 SCTMKLNAAA EMIPITWPEF AELHPFCPPE QAEGYQQMIA QLADWLVKLT GYDAVCMQPN 120
  121 SGAQGEYAGL LAIRHYHESR NEGHRDICLI PASAHGTNPA SAHMAGMQVV VVACDKNGNI 180
  181 DLTDLRAKAE QAGDNLSCIM VTYPSTHGVY EETIREVCEV VHQFGGQVYL DGANMNAQVG 240
  241 ITSPGFIGAD VSHLNLHKTF CIPHGGGGPG MGPIGVKAHL APFVPGHSVV QIEGMLTRQG 300
  301 AVSAAPFGSA SILPISWMYI RMMGAEGLKK ASQVAILNAN YIASRLQDAF PVLYTGRDGR 360
  361 VAHECILDIR PLKEETGISE LDIAKRLIDY GFHAPTMSFP VAGTLMVEPT ESESKVELDR 420
  421 FIDAMLAIRA EIDQVKAGVW PLEDNPLVNA PHIQSELVAE WAHPYSREVA VFPAGVADKY 480
  481 WPTVKRLDDV YGDRNLFCSC VPISEYQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.221849
Match:	1wytB
Description:	Crystal structure of glycine decarboxylase (P-protein) of the glycine cleavage system, in apo form
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glycine dehydrogenase (decarboxylating) activity	8.00572280567771	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor	8.00572280567771	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors	3.14486270422678	bayes_pls_golite062009
catalytic activity	2.29878871754893	bayes_pls_golite062009
transferase activity	1.44093490824786	bayes_pls_golite062009
transferase activity, transferring nitrogenous groups	1.28316822767388	bayes_pls_golite062009
transaminase activity	1.24990480711889	bayes_pls_golite062009
methyltransferase activity	0.681623261233707	bayes_pls_golite062009
L-aspartate:2-oxoglutarate aminotransferase activity	0.619695949258279	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	0.60304280865376	bayes_pls_golite062009
glycine hydroxymethyltransferase activity	0.271623203801431	bayes_pls_golite062009
O-phospho-L-serine:2-oxoglutarate aminotransferase activity	0.234399054481664	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:

Predicted functions: