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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.394	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.381	a.8.1	Bacterial immunoglobulin/albumin-binding domains
View	Download	0.358	a.5.1	DNA helicase RuvA subunit, C-terminal domain
View	Download	0.365	g.58.1	Pheromone ER-23
View	Download	0.269	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.261	a.83.1	Guanido kinase N-terminal domain
View	Download	0.229	a.64.1	Saposin
View	Download	0.226	a.8.1	Bacterial immunoglobulin/albumin-binding domains
View	Download	0.219	a.4.1	Homeodomain-like

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 are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.592	0.418	leucine biosynthetic process	c.47.1	Thioredoxin-like
View	Download	0.597	0.171	leucine biosynthetic process	b.55.1	PH domain-like
View	Download	0.566	0.004	leucine biosynthetic process	c.47.2	RNA 3'-terminal phosphate cyclase, RPTC, insert domain
View	Download	0.770	N/A	N/A	c.51.2	TolB, N-terminal domain
View	Download	0.664	N/A	N/A	d.58.19	Bacterial exopeptidase dimerisation domain
View	Download	0.537	N/A	N/A	c.15.1	BRCT domain
View	Download	0.527	N/A	N/A	b.1.2	Fibronectin type III
View	Download	0.514	N/A	N/A	d.58.13	Anticodon-binding domain of PheRS
View	Download	0.502	N/A	N/A	b.115.1	Fucose-binding lectin II (PA-IIL)
View	Download	0.491	N/A	N/A	d.58.47	Hypothetical protein VC0424
View	Download	0.488	N/A	N/A	d.17.1	Cystatin/monellin
View	Download	0.473	N/A	N/A	d.56.1	GroEL-intermediate domain like
View	Download	0.459	N/A	N/A	d.113.1	Nudix
View	Download	0.450	N/A	N/A	b.1.17	Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)
View	Download	0.438	N/A	N/A	d.80.1	Tautomerase/MIF
View	Download	0.427	N/A	N/A	d.87.2	CO dehydrogenase flavoprotein C-terminal domain-like
View	Download	0.423	N/A	N/A	d.17.4	NTF2-like
View	Download	0.409	N/A	N/A	b.61.1	Avidin/streptavidin
View	Download	0.404	N/A	N/A	d.85.1	RNA bacteriophage capsid protein
View	Download	0.396	N/A	N/A	d.87.1	FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View	Download	0.392	N/A	N/A	c.23.13	Type II 3-dehydroquinate dehydratase
View	Download	0.389	N/A	N/A	c.23.12	Formate/glycerate dehydrogenase catalytic domain-like
View	Download	0.389	N/A	N/A	b.100.1	Sortase
View	Download	0.375	N/A	N/A	d.108.1	Acyl-CoA N-acyltransferases (Nat)
View	Download	0.373	N/A	N/A	c.59.1	MurD-like peptide ligases, peptide-binding domain
View	Download	0.373	N/A	N/A	c.55.3	Ribonuclease H-like
View	Download	0.366	N/A	N/A	b.1.12	Purple acid phosphatase, N-terminal domain
View	Download	0.360	N/A	N/A	c.13.2	Anti-sigma factor antagonist SpoIIaa
View	Download	0.355	N/A	N/A	c.44.1	Phosphotyrosine protein phosphatases I
View	Download	0.346	N/A	N/A	d.87.1	FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View	Download	0.339	N/A	N/A	d.50.1	dsRNA-binding domain-like
View	Download	0.334	N/A	N/A	b.24.1	Hyaluronate lyase-like, C-terminal domain
View	Download	0.327	N/A	N/A	d.15.1	Ubiquitin-like
View	Download	0.327	N/A	N/A	d.93.1	SH2 domain
View	Download	0.326	N/A	N/A	b.1.18	E set domains
View	Download	0.322	N/A	N/A	c.52.1	Restriction endonuclease-like
View	Download	0.320	N/A	N/A	a.40.2	X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal domain
View	Download	0.310	N/A	N/A	d.134.1	Sulfite reductase hemoprotein (SiRHP), domains 2 and 4
View	Download	0.309	N/A	N/A	d.226.1	GIY-YIG endonuclease
View	Download	0.308	N/A	N/A	c.95.1	Thiolase-like
View	Download	0.307	N/A	N/A	d.87.1	FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View	Download	0.306	N/A	N/A	d.17.4	NTF2-like
View	Download	0.305	N/A	N/A	d.85.1	RNA bacteriophage capsid protein
View	Download	0.304	N/A	N/A	d.109.1	Actin depolymerizing proteins
View	Download	0.303	N/A	N/A	c.23.5	Flavoproteins
View	Download	0.299	N/A	N/A	c.61.1	PRTase-like
View	Download	0.289	N/A	N/A	d.129.2	Phosphoglucomutase, C-terminal domain
View	Download	0.283	N/A	N/A	c.47.1	Thioredoxin-like
View	Download	0.279	N/A	N/A	d.233.1	Inhibitor of vertebrate lysozyme, Ivy
View	Download	0.277	N/A	N/A	b.36.1	PDZ domain-like
View	Download	0.275	N/A	N/A	c.23.1	CheY-like
View	Download	0.274	N/A	N/A	d.113.1	Nudix
View	Download	0.274	N/A	N/A	c.26.1	Nucleotidylyl transferase
View	Download	0.264	N/A	N/A	c.48.1	TK C-terminal domain-like
View	Download	0.264	N/A	N/A	d.87.1	FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View	Download	0.262	N/A	N/A	c.23.13	Type II 3-dehydroquinate dehydratase
View	Download	0.255	N/A	N/A	d.146.1	Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain
View	Download	0.253	N/A	N/A	b.60.1	Lipocalins
View	Download	0.253	N/A	N/A	d.73.1	RuBisCO, small subunit
View	Download	0.252	N/A	N/A	c.84.1	Phosphoglucomutase, first 3 domains
View	Download	0.249	N/A	N/A	b.60.1	Lipocalins
View	Download	0.247	N/A	N/A	d.110.4	SNARE-like
View	Download	0.246	N/A	N/A	c.23.1	CheY-like
View	Download	0.243	N/A	N/A	b.18.1	Galactose-binding domain-like
View	Download	0.242	N/A	N/A	c.49.1	Pyruvate kinase, C-terminal domain
View	Download	0.240	N/A	N/A	a.130.1	Chorismate mutase II
View	Download	0.237	N/A	N/A	c.23.12	Formate/glycerate dehydrogenase catalytic domain-like
View	Download	0.237	N/A	N/A	c.55.1	Actin-like ATPase domain
View	Download	0.236	N/A	N/A	a.40.1	Calponin-homology domain, CH-domain
View	Download	0.235	N/A	N/A	c.16.1	Lumazine synthase
View	Download	0.233	N/A	N/A	d.58.41	SEA domain
View	Download	0.229	N/A	N/A	b.114.1	N-utilization substance G protein NusG, insert domain
View	Download	0.228	N/A	N/A	c.58.1	Aminoacid dehydrogenase-like, N-terminal domain
View	Download	0.220	N/A	N/A	d.92.2	beta-N-acetylhexosaminidase-like domain
View	Download	0.220	N/A	N/A	d.15.1	Ubiquitin-like
View	Download	0.217	N/A	N/A	c.49.1	Pyruvate kinase, C-terminal domain
View	Download	0.216	N/A	N/A	d.15.1	Ubiquitin-like
View	Download	0.213	N/A	N/A	d.15.2	CAD & PB1 domains
View	Download	0.206	N/A	N/A	c.47.1	Thioredoxin-like
View	Download	0.204	N/A	N/A	b.43.5	Riboflavin kinase
View	Download	0.203	N/A	N/A	d.52.4	YhbC-like, N-terminal domain
View	Download	0.202	N/A	N/A	c.121.1	Ribose/Galactose isomerase RpiB/AlsB

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: