YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|229900758, gi...
Organism:	Yersinia pestis Nepal516
Length:	365 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|229900758, gi....

Description	E-value	Query Range	Subject Range
gi\|51595021, gi\|... - gi\|51595021\|ref\|YP_069212.1\| 3-isopropylmalate dehydrogenase [Yersinia pseudotuberculosis IP 32953],...	0.0	[1..365]	[1..365]
gi\|77958252 - gi\|77958252\|ref\|ZP_00822289.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Yersinia bercovier...	0.0	[3..365]	[1..363]
gi\|77962081 - gi\|77962081\|ref\|ZP_00825906.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Yersinia mollareti...	0.0	[3..365]	[1..363]
gi\|254229746, gi... - gi\|75854663\|ref\|ZP_00762342.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Vibrio sp. Ex25], ...	0.0	[5..361]	[4..360]
gi\|91188768, gi\|... - gi\|91227116\|ref\|ZP_01261600.1\| 3-isopropylmalate dehydrogenase [Vibrio alginolyticus 12G01], gi\|9118...	0.0	[5..361]	[4..360]
gi\|238729288, gi... - gi\|77977569\|ref\|ZP_00833014.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Yersinia intermedi...	0.0	[3..365]	[1..363]
gi\|108774215, gi... - gi\|108810567\|ref\|YP_646334.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis Nepal516], gi\|1087742... LEU3_YERPE - 3-isopropylmalate dehydrogenase OS=Yersinia pestis GN=leuB PE=3 SV=2 gi\|108809556, gi... - gi\|108809556\|ref\|YP_653472.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis Antiqua], gi\|10878146... gi\|89104763, gi\|... - gi\|89104763\|ref\|ZP_01177297.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Yersinia pestis bi... gi\|167054560, gi... - gi\|167426462\|ref\|ZP_02318215.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Mediaevalis ... gi\|166960088, gi... - gi\|167421951\|ref\|ZP_02313704.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Orientalis s... gi\|145600362, gi... - gi\|145600362\|ref\|YP_001164438.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis Pestoides F], gi\|1... gi\|170025751, gi... - gi\|170025751\|ref\|YP_001722256.1\| 3-isopropylmalate dehydrogenase [Yersinia pseudotuberculosis YPIII]... gi\|167469503 - gi\|167469503\|ref\|ZP_02334207.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis FV-1] gi\|218927729 - gi\|218927729\|ref\|YP_002345604.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis CO92] gi\|161511300 - gi\|161511300\|ref\|NP_994921.2\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Microtus str. ... gi\|161484746 - gi\|161484746\|ref\|NP_670943.2\| 3-isopropylmalate dehydrogenase [Yersinia pestis KIM] gi\|166008847, gi... - gi\|166008847\|ref\|ZP_02229745.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Antiqua str.... gi\|165919797, gi... - gi\|165928186\|ref\|ZP_02224018.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Orientalis s... gi\|167401195, gi... - gi\|167401195\|ref\|ZP_02306695.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Antiqua str.... gi\|166212009, gi... - gi\|166212009\|ref\|ZP_02238044.1\| 3-isopropylmalate dehydrogenase [Yersinia pestis biovar Antiqua str.... gi\|162354576, gi... - gi\|77633505\|ref\|ZP_00795633.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Yersinia pestis An...	0.0	[3..365]	[1..363]
gi\|149747566, gi... - gi\|153839177\|ref\|ZP_01991844.1\| 3-isopropylmalate dehydrogenase [Vibrio parahaemolyticus AQ3810], gi... LEU3_VIBPA - 3-isopropylmalate dehydrogenase OS=Vibrio parahaemolyticus GN=leuB PE=3 SV=1 LEU3_VIBPA - 3-isopropylmalate dehydrogenase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=l...	0.0	[5..361]	[4..360]
gi\|238725073, gi... - gi\|77976117\|ref\|ZP_00831650.1\| COG0473: Isocitrate/isopropylmalate dehydrogenase [Yersinia frederiks...	0.0	[3..365]	[1..363]
LEU3_VIBVU - 3-isopropylmalate dehydrogenase OS=Vibrio vulnificus (strain CMCP6) GN=leuB PE=3 SV=1 LEU3_VIBVU - 3-isopropylmalate dehydrogenase OS=Vibrio vulnificus GN=leuB PE=3 SV=1	0.0	[5..361]	[4..360]

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Predicted Domain #1

Region A:
Residues: [1-365]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNMTKTYHIA VLPGDGIGPE VMAQASKVLD AVRQRFGLKI STSVYDVGGA AIDRHGSPLP  60
   61 AATVAGCEQA DAILFGSVGG PKWEHLPPAE QPERGALLPL RKHFKLFSNL RPARLYQGLE 120
  121 DFCPLRSDIA ARGFDILCVR ELTGGIYFGQ PKGREGQGMH ERAFDTEVYH RFEIERIARI 180
  181 AFESARKRRS KVTSIDKANV LQSSILWREV VNGIAADYPD VALSHMYIDN ATMQLIKDPS 240
  241 QFDVLLCSNL FGDILSDECA MITGSMGMLP SASLNEQGFG LYEPAGGSAP DIAGKNIANP 300
  301 IAQILSLTLL LRFSLGKDDA ADAIERAINQ ALEQGYRTAD LAGDGHAIGT HEMGDIIAKF 360
  361 VVEGV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	138.0
Match:	1cnzA
Description:	3-isopropylmalate dehydrogenase, IPMDH
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
isocitrate dehydrogenase (NAD+) activity	5.9567768649084	bayes_pls_golite062009
isocitrate dehydrogenase activity	5.76817846591752	bayes_pls_golite062009
3-isopropylmalate dehydrogenase activity	4.43187390953534	bayes_pls_golite062009
isocitrate dehydrogenase (NADP+) activity	3.47645456015586	bayes_pls_golite062009
malate dehydrogenase activity	3.17013707624362	bayes_pls_golite062009
oxidoreductase activity	2.74237430402883	bayes_pls_golite062009
catalytic activity	2.71251959637136	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	2.46799258909805	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	2.38235863668553	bayes_pls_golite062009
binding	1.19820115767498	bayes_pls_golite062009
malic enzyme activity	0.483776792839856	bayes_pls_golite062009
transferase activity, transferring acyl groups	0.466038297142601	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: