YRC Public Data Repository - Protein Structure Prediction

Protein:	DHE4_ECOLI
Organism:	Escherichia coli
Length:	447 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 DHE4_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|187733792, gi... - gi\|75177311\|ref\|ZP_00697400.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Shigella boyd...	503.0	[0..1]	[447..1]
gi\|15831721, gi\|... - gi\|15831721\|ref\|NP_310494.1\| glutamate dehydrogenase [Escherichia coli O157:H7], gi\|13361934\|dbj\|BAB... gi\|15831721, gi\|... - gi\|15831721\|ref\|NP_310494.1\| glutamate dehydrogenase [Escherichia coli O157:H7 str. Sakai], gi\|13361... gi\|217328795, gi... - gi\|217328795\|ref\|ZP_03444876.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str.... gi\|209768428, gi... - pir\|\|G85785 NADP-specific glutamate dehydrogenase [imported] - Escherichia coli (strain O157:H7, sub... gi\|82776794, gi\|... - gi\|82776794\|ref\|YP_403143.1\| glutamate dehydrogenase [Shigella dysenteriae Sd197], gi\|81240942\|gb\|AB... gi\|209160915, gi... - gi\|209399515\|ref\|YP_002270832.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str... gi\|208818976, gi... - gi\|208818976\|ref\|ZP_03259296.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str.... gi\|12515786, gi\|... - gi\|15802172\|ref\|NP_288194.1\| glutamate dehydrogenase [Escherichia coli O157:H7 EDL933], gi\|12515786\|... gi\|208731079, gi... - gi\|208816736\|ref\|ZP_03257856.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str.... gi\|254793379, gi... - gi\|254793379\|ref\|YP_003078216.1\| glutamate dehydrogenase, NADP-specific [Escherichia coli O157:H7 st... gi\|168782183, gi... - gi\|189000297\|gb\|EDU69283.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4... gi\|168774933, gi... - gi\|187769468\|gb\|EDU33312.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4... gi\|189360331, gi... - gi\|189360331\|gb\|EDU78750.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4... gi\|168762168, gi... - gi\|189367432\|gb\|EDU85848.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4... gi\|208724814, gi... - gi\|208810298\|ref\|ZP_03252174.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str.... gi\|195937447 - gi\|195937447\|ref\|ZP_03082829.1\| glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4024] gi\|168800052, gi... - gi\|189377605\|gb\|EDU96021.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC5... gi\|168788164, gi... - gi\|189371964\|gb\|EDU90380.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC8... gi\|189356202, gi... - gi\|189356202\|gb\|EDU74621.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4... gi\|188016287, gi... - gi\|188016287\|gb\|EDU54409.1\| NADP-specific glutamate dehydrogenase [Escherichia coli O157:H7 str. EC4...	502.0	[0..1]	[447..1]
gi\|157158996, gi... - gi\|75190793\|ref\|ZP_00704060.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c... gi\|218554327, gi... - gi\|218554327\|ref\|YP_002387240.1\| glutamate dehydrogenase [Escherichia coli IAI1], gi\|218361095\|emb\|C... gi\|193065812, gi... - gi\|75256162\|ref\|ZP_00727858.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c... gi\|218695318, gi... - gi\|218695318\|ref\|YP_002402985.1\| glutamate dehydrogenase [Escherichia coli 55989], gi\|218352050\|emb\|... gi\|75227681, gi\|... - gi\|75227681\|ref\|ZP_00714420.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c... gi\|75210247, gi\|... - gi\|75210247\|ref\|ZP_00710415.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c... gi\|209912382, gi... - gi\|209919123\|ref\|YP_002293207.1\| glutamate dehydrogenase [Escherichia coli SE11], gi\|209912382\|dbj\|B...	502.0	[0..1]	[447..1]
gi\|74311921, gi\|... - gi\|74311921\|ref\|YP_310340.1\| glutamate dehydrogenase [Shigella sonnei Ss046], gi\|73855398\|gb\|AAZ8810...	502.0	[0..1]	[447..1]
gi\|192957779, gi... - gi\|75236771\|ref\|ZP_00720842.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c...	502.0	[0..1]	[447..1]
gi\|215486978, gi... - gi\|215486978\|ref\|YP_002329409.1\| glutamate dehydrogenase [Escherichia coli O127:H6 str. E2348/69], g... gi\|227837386, gi... - gi\|227885813\|ref\|ZP_04003618.1\| glutamate dehydrogenase [Escherichia coli 83972], gi\|227837386\|gb\|EE... gi\|170519072, gi... - gi\|170681354\|ref\|YP_001743487.1\| NADP-specific glutamate dehydrogenase [Escherichia coli SMS-3-5], g... gi\|237705712, gi... - gi\|237705712\|ref\|ZP_04536193.1\| glutamate dehydrogenase [Escherichia sp. 3_2_53FAA], gi\|226900469\|gb... gi\|218689701, gi... - gi\|218689701\|ref\|YP_002397913.1\| glutamate dehydrogenase [Escherichia coli ED1a], gi\|218427265\|emb\|C... gi\|218558628, gi... - gi\|218558628\|ref\|YP_002391541.1\| glutamate dehydrogenase [Escherichia coli S88], gi\|218365397\|emb\|CA... gi\|218705258, gi... - gi\|218705258\|ref\|YP_002412777.1\| glutamate dehydrogenase [Escherichia coli UMN026], gi\|218432355\|emb... gi\|91210978, gi\|... - gi\|91210978\|ref\|YP_540964.1\| glutamate dehydrogenase [Escherichia coli UTI89], gi\|91072552\|gb\|ABE074... gi\|115513057, gi... - gi\|117623933\|ref\|YP_852846.1\| glutamate dehydrogenase [Escherichia coli APEC O1], gi\|115513057\|gb\|AB... gi\|110641881, gi... - gi\|110641881\|ref\|YP_669611.1\| glutamate dehydrogenase [Escherichia coli 536], gi\|110343473\|gb\|ABG697... gi\|188491408, gi... - gi\|75513744\|ref\|ZP_00736120.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c... gi\|75241365, gi\|... - gi\|75241365\|ref\|ZP_00725216.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Escherichia c... gi\|26248016, gi\|... - gi\|26248016\|ref\|NP_754056.1\| glutamate dehydrogenase [Escherichia coli CFT073], gi\|26108419\|gb\|AAN80...	502.0	[0..1]	[447..1]
gi\|194433506, gi... - gi\|83569633\|ref\|ZP_00921084.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Shigella dyse...	501.0	[0..1]	[447..1]
gi\|81245247, gi\|... - gi\|82543836\|ref\|YP_407783.1\| glutamate dehydrogenase [Shigella boydii Sb227], gi\|81245247\|gb\|ABB6595...	501.0	[0..1]	[447..1]
gi\|146126 - gi\|146126\|gb\|AAA23868.1\| glutamate dehydrogenase	501.0	[0..1]	[447..1]
gi\|86131236, gi\|... - gi\|86131236\|ref\|ZP_01049835.1\| glutamate dehydrogenase [Cellulophaga sp. MED134], gi\|85818647\|gb\|EAQ...	500.0	[0..3]	[447..1]

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Predicted Domain #1

Region A:
Residues: [1-447]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDQTYSLESF LNHVQKRDPN QTEFAQAVRE VMTTLWPFLE QNPKYRQMSL LERLVEPERV  60
   61 IQFRVVWVDD RNQIQVNRAW RVQFSSAIGP YKGGMRFHPS VNLSILKFLG FEQTFKNALT 120
  121 TLPMGGGKGG SDFDPKGKSE GEVMRFCQAL MTELYRHLGA DTDVPAGDIG VGGREVGFMA 180
  181 GMMKKLSNNT ACVFTGKGLS FGGSLIRPEA TGYGLVYFTE AMLKRHGMGF EGMRVSVSGS 240
  241 GNVAQYAIEK AMEFGARVIT ASDSSGTVVD ESGFTKEKLA RLIEIKASRD GRVADYAKEF 300
  301 GLVYLEGQQP WSLPVDIALP CATQNELDVD AAHQLIANGV KAVAEGANMP TTIEATELFQ 360
  361 QAGVLFAPGK AANAGGVATS GLEMAQNAAR LGWKAEKVDA RLHHIMLDIH HACVEHGGEG 420
  421 EQTNYVQGAN IAGFVKVADA MLAQGVI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	124.0
Match:	1bgvA
Description:	Glutamate dehydrogenase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glutamate dehydrogenase (NADP+) activity	4.50065200228697	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor	4.08697502437308	bayes_pls_golite062009
oxidoreductase activity	3.54983447672782	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	2.66605122152932	bayes_pls_golite062009
malate dehydrogenase activity	2.43636049081724	bayes_pls_golite062009
catalytic activity	2.0643953589843	bayes_pls_golite062009
binding	1.77370305872094	bayes_pls_golite062009
DNA binding	1.61355789916908	bayes_pls_golite062009
transcription regulator activity	1.55390653047158	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	1.54527841865655	bayes_pls_golite062009
nucleic acid binding	1.48478425318425	bayes_pls_golite062009
malic enzyme activity	1.39067036188188	bayes_pls_golite062009
glutamate dehydrogenase [NAD(P)+] activity	0.994926158034199	bayes_pls_golite062009
transcription factor activity	0.91090893050278	bayes_pls_golite062009
structural molecule activity	0.345975336806588	bayes_pls_golite062009
NAD or NADH binding	0.0664389065992004	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: