YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213162977
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E00-7866
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 gi|213162977.

Description	E-value	Query Range	Subject Range
lcl\|NC_016856.1_... - [gene=gdhA] [protein=glutamate dehydrogenase] [protein_id=YP_005237152.1] [location=complement(13886... DHE4_SALTY - NADP-specific glutamate dehydrogenase OS=Salmonella typhimurium GN=gdhA PE=3 SV=2 gi\|167991885, gi... - gi\|205329728\|gb\|EDZ16492.1\| NADP-specific glutamate dehydrogenase [Salmonella enterica subsp. enteri... gi\|197261668, gi... - gi\|197261668\|ref\|ZP_03161742.1\| NADP-specific glutamate dehydrogenase [Salmonella enterica subsp. en... DHE4_SALTY - NADP-specific glutamate dehydrogenase OS=Salmonella typhimurium GN=gdhA PE=3 SV=2 DHE4_SALTY - NADP-specific glutamate dehydrogenase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720... gi\|161363663, gi... - gi\|161614299\|ref\|YP_001588264.1\| glutamate dehydrogenase [Salmonella enterica subsp. enterica serova...	0.0	[1..447]	[1..447]
gi\|197362638, gi... - gi\|197362638\|ref\|YP_002142275.1\| glutamate dehydrogenase [Salmonella enterica subsp. enterica serova... gi\|56127972, gi\|... - gi\|56413715\|ref\|YP_150790.1\| glutamate dehydrogenase [Salmonella enterica subsp. enterica serovar Pa...	0.0	[1..447]	[1..447]
gi\|154085\|gb\|AAA... - glutamate dehydrogenase (EC 1.4.1.4) gi\|154085 - gi\|154085\|gb\|AAA27131.1\| glutamate dehydrogenase (EC 1.4.1.4) [Salmonella enterica subsp. enterica s...	0.0	[1..447]	[1..447]
gi\|68346947, gi\|... - gi\|70732648\|ref\|YP_262411.1\| glutamate dehydrogenase [Pseudomonas fluorescens Pf-5], gi\|68346947\|gb\|...	0.0	[5..447]	[26..468]
gi\|62127524, gi\|... - gi\|62179891\|ref\|YP_216308.1\| glutamate dehydrogenase [Salmonella enterica subsp. enterica serovar Ch...	0.0	[1..447]	[1..447]
gi\|187733792, gi... - gi\|75177311\|ref\|ZP_00697400.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Shigella boyd...	0.0	[1..447]	[1..447]
gi\|48728839, gi\|... - gi\|77461095\|ref\|YP_350602.1\| glutamate dehydrogenase [Pseudomonas fluorescens Pf0-1], gi\|77385098\|gb...	0.0	[5..447]	[3..445]
gi\|107099749 - gi\|107099749\|ref\|ZP_01363667.1\| hypothetical protein PaerPA_01000767 [Pseudomonas aeruginosa PACS2] gi\|254238668, gi... - gi\|84317187\|ref\|ZP_00965641.1\| COG0334: Glutamate dehydrogenase/leucine dehydrogenase [Pseudomonas a...	0.0	[4..447]	[2..445]
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...	0.0	[1..447]	[1..447]
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...	0.0	[1..447]	[1..447]

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Predicted Domain #1

Region A:
Residues: [1-447]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDQTCSLESF LNHVQKRDPH QTEFAQAVRE VMTTLWPFLE QNPRYRHMSL LERLVEPERV  60
   61 IQFRVVWLDD KNQVQVNRAW RVQFNSAIGP YKGGMRFHPS VNLSILKFLG FEQTFKNALT 120
  121 TLPMGGGKGG SDFDPKGKSE GEVMRFCQAL MTELYRHLGP DTDVPAGDIG VGGREVGFMA 180
  181 GMMRKLSNNS ACVFTGKGLS FGGSLIRPEA TGYGLVYFTE AMLKRHGLGF EGMRVAVSGS 240
  241 GNVAQYAIEK AMAFGARVVT ASDSSGTVVD ESGFTPEKLA RLCEIKASRD GRVADYAREF 300
  301 GLTYLEGQQP WSVPVDIALP CATQNELDVD AARVLIANGV KAVAEGANMP TTIEATDLFL 360
  361 EAGVLFAPGK AANAGGVATS GLEMAQNAAR LSWKAEKVDA RLHHIMLDIH HACVKYGGDN 420
  421 KHTNYVQGAN IAGFVKVADA MLAQGVI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	134.0
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: