YRC Public Data Repository - Protein Structure Prediction

Protein:	GPDA_YERP3
Organism:	Yersinia pseudotuberculosis IP 31758
Length:	339 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 GPDA_YERP3.

Description	E-value	Query Range	Subject Range
gi\|238715079, gi... - gi\|77958478\|ref\|ZP_00822511.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Yersinia bercovieri ATCC...	1.0E-69	[1..339]	[1..339]
gi\|77972955, gi\|... - gi\|77972955\|ref\|ZP_00828509.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Yersinia frederiksenii A...	5.0E-69	[1..339]	[1..339]
gi\|238794391, gi... - gi\|77977373\|ref\|ZP_00832823.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Yersinia intermedia ATCC...	2.0E-68	[1..339]	[1..339]
gi\|238717337, gi... - gi\|77961958\|ref\|ZP_00825785.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Yersinia mollaretii ATCC...	3.0E-68	[1..339]	[1..341]
GPDA_LEPIC - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Leptospira interrogans serogroup Icterohaemorrhagiae... GPDA_LEPIC - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Leptospira interrogans serogroup Icterohaemorrhagiae...	1.0E-66	[6..339]	[1..335]
GPDA_PECAS - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC... GPDA_ERWCT - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Erwinia carotovora subsp. atroseptica GN=gpsA PE=3 S...	1.0E-66	[1..336]	[1..336]
GPDA_LEPIN - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Leptospira interrogans serogroup Icterohaemorrhagiae... GPDA_LEPIN - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Leptospira interrogans GN=gpsA PE=3 SV=1	2.0E-66	[6..339]	[1..335]
GPDA_SERMA - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Serratia marcescens GN=gpsA PE=3 SV=1	4.0E-66	[1..339]	[1..340]
gi\|77810683, gi\|... - gi\|77814412\|ref\|ZP_00813672.1\| Glycerol-3-phosphate dehydrogenase (NAD(P)+) [Shewanella putrefaciens... gi\|82744058, gi\|... - gi\|82744058\|ref\|ZP_00906660.1\| Glycerol-3-phosphate dehydrogenase (NAD(P)+) [Shewanella sp. W3-18-1]...	2.0E-65	[8..336]	[34..362]
gi\|254594966, gi... - gi\|254795566\|ref\|YP_003080403.1\| glycerol-3-phosphate dehydrogenase (NAD+) [Escherichia coli O157:H7... gi\|254163538, gi... - gi\|254163538\|ref\|YP_003046646.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Escherichia c... gi\|226838773, gi... - gi\|254038808\|ref\|ZP_04872860.1\| glycerol-3-phosphate dehydrogenase [Escherichia sp. 1_1_43], gi\|2268... gi\|253322593, gi... - gi\|254290288\|ref\|YP_003056036.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Escherichia c... gi\|242379132, gi... - gi\|251786859\|ref\|YP_003001163.1\| hypothetical protein B21_03417 [Escherichia coli BL21], gi\|24237913... GPDA_ECOBW - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=g... gi\|226902643, gi... - gi\|237703379\|ref\|ZP_04533860.1\| glycerol-3-phosphate dehydrogenase [Escherichia sp. 3_2_53FAA], gi\|2... gi\|227839056, gi... - gi\|227883778\|ref\|ZP_04001583.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Escherichia co... GPDA_ECO8A - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O8 (strain IAI1) GN=gpsA PE=3 SV=1 GPDA_ECO45 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=gpsA... GPDA_ECO81 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O81 (strain ED1a) GN=gpsA PE=3 SV=1 GPDA_ECO55 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli (strain 55989 / EAEC) GN=gpsA PE=3 ... GPDA_ECO7I - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=gps... gi\|195935137 - gi\|195935137\|ref\|ZP_03080519.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Escherichia co... gi\|208809099, gi... - gi\|208809099\|ref\|ZP_03251436.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O... gi\|208812363, gi... - gi\|208812363\|ref\|ZP_03253692.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O... gi\|208820427, gi... - gi\|208820427\|ref\|ZP_03260747.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O... GPDA_ECO5E - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=g... GPDA_ECOSE - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli (strain SE11) GN=gpsA PE=3 SV=1 GPDA_ECO27 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN... gi\|217320929, gi... - gi\|217324708\|ref\|ZP_03440792.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O... GPDA_ECOL6 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O6 GN=gpsA PE=3 SV=1 gi\|193066093, gi... - gi\|75255826\|ref\|ZP_00727572.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Escherichia coli E22], g... GPDA_ECOL5 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=g... gi\|75514323, gi\|... - gi\|75514323\|ref\|ZP_00736631.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Escherichia coli 53638],... gi\|75228673, gi\|... - gi\|75228673\|ref\|ZP_00715294.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Escherichia coli B7A], g... gi\|75237550, gi\|... - gi\|75237550\|ref\|ZP_00721583.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Escherichia coli E110019... gi\|89110403, gi\|... - gi\|89110403\|ref\|AP_004183.1\| glycerol-3-phosphate dehydrogenase (NAD+) [Escherichia coli str. K-12 s... GPDA_SHISS - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Shigella sonnei (strain Ss046) GN=gpsA PE=3 SV=1 GPDA_ECOUT - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli (strain UTI89 / UPEC) GN=gpsA PE=3 ... GPDA_SHIDS - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=gp... gi\|13363961, gi\|... - gi\|15833740\|ref\|NP_312513.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli ... gi\|194420803, gi... - gi\|83571401\|ref\|ZP_00922841.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Shigella dysenteriae 101... GPDA_ECOHS - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O9:H4 (strain HS) GN=gpsA PE=3 SV=1 gi\|194414555, gi... - gi\|75211365\|ref\|ZP_00711464.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Escherichia coli B171], ... gi\|194425355, gi... - gi\|83588538\|ref\|ZP_00927162.1\| COG0240: Glycerol-3-phosphate dehydrogenase [Escherichia coli 101-1],... GPDA_ECO24 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN... GPDA_SHIFL - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Shigella flexneri GN=gpsA PE=3 SV=1 gi\|24114877, gi\|... - gi\|24114877\|ref\|NP_709387.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Shigella flexneri... GPDA_ECOL6 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 ... gi\|30065116, gi\|... - gi\|30065116\|ref\|NP_839287.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Shigella flexneri... GPDA_ECO57 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O157:H7 GN=gpsA PE=3 SV=1 EG20091 - glycerol-3-phosphate dehydrogenase (NAD+) / sn-Glycerol-3-phosphate dehydrogenase [NAD(P)+] gi\|12518358, gi\|... - gi\|15804152\|ref\|NP_290191.1\| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli ... gi\|168759705, gi... - gi\|189369823\|gb\|EDU88239.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... gi\|189364641, gi... - gi\|189364641\|gb\|EDU83060.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... gi\|187771353, gi... - gi\|187771353\|gb\|EDU35197.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... gi\|189002472, gi... - gi\|189002472\|gb\|EDU71458.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... gi\|168785485, gi... - gi\|189374244\|gb\|EDU92660.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... gi\|189379937, gi... - gi\|189379937\|gb\|EDU98353.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... GPDA_ECODH - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli (strain K12 / DH10B) GN=gpsA PE=3 S... GPDA_ECOSM - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=gpsA PE... gi\|168746842, gi... - gi\|188018395\|gb\|EDU56517.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... gi\|168753431, gi... - gi\|189358853\|gb\|EDU77272.1\| NAD-dependent glycerol-3-phosphate dehydrogenase [Escherichia coli O157:... EG20091 - glycerol-3-phosphate dehydrogenase (NAD+) / sn-Glycerol-3-phosphate dehydrogenase [NAD(P)+] GPDA_ECOLI - Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) (NAD(P)H-dependent glycerol-3-phosphate d... GPDA_ECOK1 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O1:K1 / APEC GN=gpsA PE=3 SV=1 sp\|B7ULG4\|GPDA_ECO27 - Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN...	2.0E-65	[1..336]	[1..336]

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Predicted Domain #1

Region A:
Residues: [1-339]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNTNPASMAV IGAGSYGTAL AITLARNGHQ VVLWGHDPKH IQQLQQDRCN RAFLPDAAFP  60
   61 DTLRLETDLA CALAASRDVL VVVPSHVFGA VLHQLKPHLR KDARIVWATK GLEAETGRLL 120
  121 QDVAREVLGE AIPLAVISGP TFAKELAAGL PTAIALASTD VQFSEDLQQL LHCGKSFRVY 180
  181 SNPDFIGVQL GGAVKNVIAI GAGMSDGIGF GANARTALIT RGLAEMTRLG TALGADPSTF 240
  241 MGMAGLGDLV LTCTDNQSRN RRFGIMLGQG LGVKEAQDNI GQVVEGYRNT KEVLALAQRH 300
  301 GVEMPITEQI YQVLYCHKNA REAALTLLGR TKKDEKIGI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	49.0
Match:	1evyA
Description:	Glycerol-3-phosphate dehydrogenase; Glycerol-3- phosphate dehydrogenase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glycerol-3-phosphate dehydrogenase activity	5.69778822954678	bayes_pls_golite062009
alcohol dehydrogenase (NAD) activity	2.94416173750168	bayes_pls_golite062009
alcohol dehydrogenase activity, zinc-dependent	2.26153457113968	bayes_pls_golite062009
catalytic activity	1.79741889688267	bayes_pls_golite062009
coenzyme binding	1.75381990395214	bayes_pls_golite062009
3-hydroxyacyl-CoA dehydrogenase activity	1.38286873947786	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors	1.2944666056092	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	1.21748262163777	bayes_pls_golite062009
retinol dehydrogenase activity	1.16811519855038	bayes_pls_golite062009
oxidoreductase activity	0.9367410227151	bayes_pls_golite062009
binding	0.784517759335365	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	0.602741520623622	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.526220107896909	bayes_pls_golite062009
DNA binding	0.525227236870065	bayes_pls_golite062009
nucleic acid binding	0.459537641913493	bayes_pls_golite062009
NAD or NADH binding	0.44922383360529	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	0.418775403210681	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.32207755075663	bayes_pls_golite062009
glycerol-3-phosphate dehydrogenase (NAD+) activity	0.288558688124398	bayes_pls_golite062009
transporter activity	0.270546223513707	bayes_pls_golite062009
L-iditol 2-dehydrogenase activity	0.198746846996811	bayes_pls_golite062009
transcription regulator activity	0.152651308844322	bayes_pls_golite062009
transmembrane transporter activity	0.0739813185157518	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: