YRC Public Data Repository - Protein Structure Prediction

Protein:	LEU9
Organism:	Saccharomyces cerevisiae
Length:	604 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 LEU9.

Description	E-value	Query Range	Subject Range
LEU9_YEAST - 2-isopropylmalate synthase 2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c)... LEU9 - Alpha-isopropylmalate synthase II (2-isopropylmalate synthase), catalyzes the first step in the leuc...	0.0	[1..604]	[1..604]
gi\|89104762, gi\|... - gi\|89104762\|ref\|ZP_01177296.1\| COG0119: Isopropylmalate/homocitrate/citramalate synthases [Yersinia ... LEU1_YERPA - 2-isopropylmalate synthase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=leuA PE=3 SV=1 gi\|165992051, gi... - gi\|166008712\|ref\|ZP_02229610.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Antiqua str. E197... LEU1_YERPS - 2-isopropylmalate synthase OS=Yersinia pseudotuberculosis GN=leuA PE=3 SV=1 gi\|165919820, gi... - gi\|165928209\|ref\|ZP_02224041.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Orientalis str. F... gi\|167049327, gi... - gi\|167401302\|ref\|ZP_02306802.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Antiqua str. UG05... gi\|166206878, gi... - gi\|166212132\|ref\|ZP_02238167.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Antiqua str. B420... gi\|45443381, gi\|... - gi\|45443381\|ref\|NP_994920.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Microtus str. 91001]... gi\|16120862, gi\|... - gi\|218927730\|ref\|YP_002345605.1\| 2-isopropylmalate synthase [Yersinia pestis CO92], gi\|16120862\|ref\|... LEU1_YERPS - 2-isopropylmalate synthase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=leuA PE=3 S... LEU1_YERPG - 2-isopropylmalate synthase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=leuA PE=3 SV=1 LEU1_YERP3 - 2-isopropylmalate synthase OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=leuA PE... LEU1_YERPN - 2-isopropylmalate synthase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=leuA PE=3 SV=1 LEU1_YERPE - 2-isopropylmalate synthase OS=Yersinia pestis GN=leuA PE=3 SV=1 gi\|167469504 - gi\|167469504\|ref\|ZP_02334208.1\| 2-isopropylmalate synthase [Yersinia pestis FV-1] gi\|166960132, gi... - gi\|167421995\|ref\|ZP_02313748.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Orientalis str. M... LEU1_YERPB - 2-isopropylmalate synthase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=leuA PE=3 SV... gi\|149289839, gi... - gi\|150260431\|ref\|ZP_01917159.1\| 2-isopropylmalate synthase [Yersinia pestis CA88-4125], gi\|149289839... LEU1_YERPY - 2-isopropylmalate synthase OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=leuA PE=3 S... gi\|229836878, gi... - gi\|229836878\|ref\|ZP_04457043.1\| 2-isopropylmalate synthase [Yersinia pestis Pestoides A], gi\|2297058... LEU1_YERPP - 2-isopropylmalate synthase OS=Yersinia pestis (strain Pestoides F) GN=leuA PE=3 SV=1 gi\|229840424, gi... - gi\|229840424\|ref\|ZP_04460583.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Orientalis str. P... gi\|229843035, gi... - gi\|229843035\|ref\|ZP_04463185.1\| 2-isopropylmalate synthase [Yersinia pestis biovar Orientalis str. I...	0.0	[56..600]	[1..505]
LEU1_BUCAP - 2-isopropylmalate synthase OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=leuA PE=... gi\|219730356\|emb... - unnamed protein product [Buchnera aphidicola], unnamed protein product [Buchnera aphidicola], unname... LEU1_BUCAP - 2-isopropylmalate synthase OS=Buchnera aphidicola subsp. Schizaphis graminum GN=leuA PE=3 SV=1	0.0	[56..600]	[1..506]
LEU1_BUCAI - 2-isopropylmalate synthase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=leuA PE... LEU1_BUCAI - 2-isopropylmalate synthase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum GN=leuA PE=3 SV=3 gi\|219783132\|emb... - unnamed protein product [Buchnera aphidicola], unnamed protein product [Buchnera aphidicola], unname...	0.0	[56..600]	[1..506]
LEU12_ARATH - 2-isopropylmalate synthase 2, chloroplastic OS=Arabidopsis thaliana GN=IPMS2 PE=1 SV=1	0.0	[5..599]	[33..614]
gi\|5912536 - gi\|5912536\|emb\|CAA07305.2\| 2-isoproylmalate synthase [Buchnera aphidicola]	0.0	[56..600]	[1..506]
gi\|194456533, gi... - gi\|194470169\|ref\|ZP_03076153.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica sero... LEU1_SALSV - 2-isopropylmalate synthase OS=Salmonella schwarzengrund (strain CVM19633) GN=leuA PE=3 SV=1 gi\|197243351, gi... - gi\|197265096\|ref\|ZP_03165170.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica sero... LEU1_SALDC - 2-isopropylmalate synthase OS=Salmonella dublin (strain CT_02021853) GN=leuA PE=3 SV=1 lcl\|NC_016856.1_... - [gene=leuA] [protein=2-isopropylmalate synthase] [protein_id=YP_005235767.1] [location=complement(13... gi\|168262205, gi... - gi\|205348821\|gb\|EDZ35452.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... gi\|168464339, gi... - gi\|195632830\|gb\|EDX51284.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... gi\|205342405, gi... - gi\|205342405\|gb\|EDZ29169.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... LEU1_SALHS - 2-isopropylmalate synthase OS=Salmonella heidelberg (strain SL476) GN=leuA PE=3 SV=1 gi\|205331293, gi... - gi\|205331293\|gb\|EDZ18057.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... gi\|205335105, gi... - gi\|205335105\|gb\|EDZ21869.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... gi\|168234874, gi... - gi\|197291975\|gb\|EDY31325.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... gi\|205337488, gi... - gi\|205337488\|gb\|EDZ24252.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar ... LEU1_SALPB - 2-isopropylmalate synthase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=leuA PE=3 SV=1 LEU1_SALPB - 2-isopropylmalate synthase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=leuA PE=3 SV=1 gi\|238911171 - gi\|238911171\|ref\|ZP_04655008.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica sero... LEU1_SALTY - 2-isopropylmalate synthase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=leuA P... LEU1_SALTY - 2-isopropylmalate synthase OS=Salmonella typhimurium GN=leuA PE=3 SV=4 gi\|204927123, gi... - gi\|204927123\|ref\|ZP_03218325.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica sero... LEU1_SALG2 - 2-isopropylmalate synthase OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=leuA PE=3 SV=1 LEU1_SALEP - 2-isopropylmalate synthase OS=Salmonella enteritidis PT4 (strain P125109) GN=leuA PE=3 SV=1 LEU1_SALTY - 2-isopropylmalate synthase OS=Salmonella typhimurium GN=leuA PE=3 SV=4	0.0	[56..600]	[1..505]
gi\|29136282, gi\|... - gi\|29140658\|ref\|NP_804000.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar... gi\|16759108 - gi\|16759108\|ref\|NP_454725.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica serovar... LEU1_SALTI - 2-isopropylmalate synthase OS=Salmonella typhi GN=leuA PE=3 SV=3 LEU1_SALTI - 2-isopropylmalate synthase OS=Salmonella typhi GN=leuA PE=3 SV=3 gi\|213647625 - gi\|213647625\|ref\|ZP_03377678.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica sero... gi\|214001225 - gi\|214001225\|ref\|ZP_03411960.1\| 2-isopropylmalate synthase [Salmonella enterica subsp. enterica sero...	0.0	[56..600]	[1..505]

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Predicted Domain #1

Region A:
Residues: [1-52]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKHSFIALA EHASKLRRSI PPVKLTYKNM LRDPSVKYRA FAPPKMVKRI WP

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
2-isopropylmalate synthase activity	3.07962096729216	bayes_pls_golite062009
transferase activity, transferring aldehyde or ketonic groups	2.96685031644778	bayes_pls_golite062009
catalytic activity	2.67031204377352	bayes_pls_golite062009
lyase activity	0.740424046054758	bayes_pls_golite062009
porphobilinogen synthase activity	0.658378297259497	bayes_pls_golite062009
transaldolase activity	0.184100272651834	bayes_pls_golite062009
binding	0.155633578635864	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [53-218]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DKTIQKAPRW LSTDLRDGNQ SLPDPMSVAQ KKEYFHKLIN IGFKEIEVSF PSASQTDFDF  60
   61 TRYAVENAPD DVGIQCLVQS REHLIKRTVE ALTGAKRATI HTYLATSDMF REIVFNMSRE 120
  121 EAISKAVEAT KLVRKLTKDD PSQQATRWSY EFSPECFSDT PGEFAV

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	8.57
Match:	1euaA
Description:	KDPG aldolase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [219-490]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EICEAVKKAW EPTEENPIIF NLPATVEVAS PNVYADQIEY FSTHITEREK VCISTHCHND  60
   61 RGCGVAATEL GMLAGADRVE GCLFGNGERT GNVDLVTVAM NMYTQGVSPN LDFSDLTSIS 120
  121 EIVHRCNKIP IPPRAPYGGE LVVSAFSGSH QDAIKKGFAI QNKKQAQGET RWRIPYLPLD 180
  181 PKDIGRDYEA VIRVNSQSGK GGAAWVIMRS LGLDVPRPMQ VDFSNTLQKN ADALGRELKS 240
  241 EEITKLFKET YNYNNNEHIY VTLLNYEVKK LN

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.4
Match:	1f5zA
Description:	N-acetylneuraminate lyase
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [491-604]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PERRALVGQV EINDKVVNIE GYGNGPISSL VDALSNLLNV KLSVQNYSEH SLGSGSATQA  60
   61 ASFINLSYIK DINNHATSNM WGVGVSEDTG DASIKAVFAT VNNIIHSGDV LLAE

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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: