YRC Public Data Repository - Protein Structure Prediction

Protein:	LEU4
Organism:	Saccharomyces cerevisiae
Length:	619 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 LEU4.

Description	E-value	Query Range	Subject Range
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	[57..610]	[1..515]
gi\|190409093 - gi\|190409093\|gb\|EDV12358.1\| alpha-isopropylmalate synthase [Saccharomyces cerevisiae RM11-1a] LEU4 - Alpha-isopropylmalate synthase (2-isopropylmalate synthase); the main isozyme responsible for the fi... LEU1_YEAST - 2-isopropylmalate synthase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LEU4 PE=1 SV=...	0.0	[1..619]	[1..619]
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	[57..604]	[1..510]
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	[57..611]	[1..516]
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	[57..611]	[1..516]
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	[57..604]	[1..510]
gi\|5912536 - gi\|5912536\|emb\|CAA07305.2\| 2-isoproylmalate synthase [Buchnera aphidicola]	0.0	[57..604]	[1..510]
LEU12_ARATH - 2-isopropylmalate synthase 2, chloroplastic OS=Arabidopsis thaliana GN=IPMS2 PE=1 SV=1	0.0	[4..599]	[33..614]
LEU1_BUCRP - 2-isopropylmalate synthase OS=Buchnera aphidicola subsp. Rhopalosiphum padi GN=leuA PE=3 SV=1 gi\|899388 - gi\|899388\|emb\|CAA50615.1\| 2-isopropylmalate synthase [Buchnera aphidicola]	0.0	[57..602]	[1..508]
LEU1_ECOLU - 2-isopropylmalate synthase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=leuA PE=3 SV=1 gi\|217321924, gi... - gi\|217325703\|ref\|ZP_03441787.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. TW14588], ... LEU1_ECO5E - 2-isopropylmalate synthase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=leuA PE=3 SV=1 gi\|208741018, gi... - gi\|208820895\|ref\|ZP_03261215.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4042], g... gi\|254791212, gi... - gi\|254791212\|ref\|YP_003076049.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. TW14359],... LEU1_ECO57 - 2-isopropylmalate synthase OS=Escherichia coli O157:H7 GN=leuA PE=3 SV=3 gi\|189370825, gi... - gi\|189370825\|gb\|EDU89241.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC869], gi\|168... gi\|25311587, gi\|... - pir\|\|F85489 2-isopropylmalate synthase [imported] - Escherichia coli (strain O157:H7, substrain EDL... gi\|168781958, gi... - gi\|189000468\|gb\|EDU69454.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4076], gi\|16... gi\|187767772, gi... - gi\|187767772\|gb\|EDU31616.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4196], gi\|16... gi\|15799758, gi\|... - gi\|15799758\|ref\|NP_285770.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 EDL933], gi\|125127... gi\|189359889, gi... - gi\|189359889\|gb\|EDU78308.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4486], gi\|16... gi\|208812302, gi... - gi\|208812302\|ref\|ZP_03253631.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4045], g... gi\|208729331, gi... - gi\|208809530\|ref\|ZP_03251867.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4206], g... gi\|195939291 - gi\|195939291\|ref\|ZP_03084673.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4024] gi\|189376350, gi... - gi\|189376350\|gb\|EDU94766.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC508], gi\|168... gi\|168764048, gi... - gi\|189365887\|gb\|EDU84303.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4501], gi\|16... gi\|189357002, gi... - gi\|189357002\|gb\|EDU75421.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4401], gi\|16... gi\|15829332, gi\|... - gi\|15829332\|ref\|NP_308105.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. Sakai], gi\|13... gi\|188014548, gi... - gi\|188014548\|gb\|EDU52670.1\| 2-isopropylmalate synthase [Escherichia coli O157:H7 str. EC4113], gi\|16...	0.0	[57..609]	[1..514]

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Predicted Domain #1

Region A:
Residues: [1-476]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKESIIALA EHAASRASRV IPPVKLAYKN MLKDPSSKYK PFNAPKLSNR KWPDNRITRA  60
   61 PRWLSTDLRD GNQSLPDPMS VEQKKEYFHK LVNIGFKEIE VSFPSASQTD FDFTRYAVEN 120
  121 APDDVSIQCL VQSREHLIKR TVEALTGAKK ATIHTYLATS DMFREIVFNM SREEAISKAV 180
  181 EATKLVRKLT KDDPSQQATR WSYEFSPECF SDTPGEFAVE ICEAVKKAWE PTEENPIIFN 240
  241 LPATVEVASP NVYADQIEYF ATHITEREKV CISTHCHNDR GCGVAATELG MLAGADRVEG 300
  301 CLFGNGERTG NVDLVTVAMN MYTQGVSPNL DFSDLTSVLD VVERCNKIPV SQRAPYGGDL 360
  361 VVCAFSGSHQ DAIKKGFNLQ NKKRAQGETQ WRIPYLPLDP KDIGRDYEAV IRVNSQSGKG 420
  421 GAAWVILRSL GLDLPRNMQI EFSSAVQDHA DSLGRELKSD EISKLFKEAY NYNDEQ

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.73
Match:	1e1cA
Description:	Methylmalonyl-CoA mutase alpha subunit, domain 1; Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
Matching Structure (courtesy of the PDB):

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: [477-619]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YQAISLVNYN VEKFGTERRV FTGQVKVGDQ IVDIEGTGNG PISSLVDALS NLLNVRFAVA  60
   61 NYTEHSLGSG SSTQAASYIH LSYRRNADNE KAYKWGVGVS EDVGDSSVRA IFATINNIIH 120
  121 SGDVSIPSLA EVEGKNAAAS GSA

[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	0.772	0.308	leucine biosynthetic process	c.55.3	Ribonuclease H-like
View	Download	0.754	0.100	leucine biosynthetic process	d.109.1	Actin depolymerizing proteins
View	Download	0.773	N/A	N/A	c.23.12	Formate/glycerate dehydrogenase catalytic domain-like
View	Download	0.746	N/A	N/A	d.79.2	Tubulin/Dihydroxyacetone kinase C-terminal domain
View	Download	0.636	N/A	N/A	c.55.3	Ribonuclease H-like
View	Download	0.591	N/A	N/A	d.108.1	Acyl-CoA N-acyltransferases (Nat)
View	Download	0.535	N/A	N/A	d.16.1	FAD-linked reductases, C-terminal domain
View	Download	0.526	N/A	N/A	b.60.1	Lipocalins
View	Download	0.513	N/A	N/A	c.51.2	TolB, N-terminal domain
View	Download	0.509	N/A	N/A	d.189.1	PX domain
View	Download	0.494	N/A	N/A	c.55.3	Ribonuclease H-like
View	Download	0.482	N/A	N/A	c.23.12	Formate/glycerate dehydrogenase catalytic domain-like
View	Download	0.480	N/A	N/A	b.60.1	Lipocalins
View	Download	0.478	N/A	N/A	c.55.6	DNA repair protein MutS, domain II
View	Download	0.465	N/A	N/A	b.1.18	E set domains
View	Download	0.463	N/A	N/A	d.19.1	MHC antigen-recognition domain
View	Download	0.462	N/A	N/A	b.2.4	Alpha-macroglobulin receptor domain
View	Download	0.453	N/A	N/A	c.55.3	Ribonuclease H-like
View	Download	0.449	N/A	N/A	c.23.1	CheY-like
View	Download	0.447	N/A	N/A	b.1.4	beta-Galactosidase/glucuronidase domain
View	Download	0.437	N/A	N/A	d.58.21	Molybdenum cofactor biosynthesis protein C, MoaC
View	Download	0.427	N/A	N/A	d.155.1	Pyruvoyl-dependent histidine and arginine decarboxylases
View	Download	0.426	N/A	N/A	b.1.18	E set domains
View	Download	0.420	N/A	N/A	d.58.41	SEA domain
View	Download	0.411	N/A	N/A	c.57.1	Molybdenum cofactor biosynthesis proteins
View	Download	0.395	N/A	N/A	b.60.1	Lipocalins
View	Download	0.392	N/A	N/A	c.23.6	Cobalamin (vitamin B12)-binding domain
View	Download	0.392	N/A	N/A	c.23.13	Type II 3-dehydroquinate dehydratase
View	Download	0.370	N/A	N/A	c.23.1	CheY-like
View	Download	0.369	N/A	N/A	d.16.1	FAD-linked reductases, C-terminal domain
View	Download	0.368	N/A	N/A	b.22.1	TNF-like
View	Download	0.357	N/A	N/A	d.109.1	Actin depolymerizing proteins
View	Download	0.355	N/A	N/A	b.60.1	Lipocalins
View	Download	0.349	N/A	N/A	b.55.1	PH domain-like
View	Download	0.345	N/A	N/A	b.7.1	C2 domain (Calcium/lipid-binding domain, CaLB)
View	Download	0.343	N/A	N/A	c.32.1	Tubulin/Dihydroxyacetone kinase nucleotide-binding domain
View	Download	0.339	N/A	N/A	b.60.1	Lipocalins
View	Download	0.324	N/A	N/A	c.36.1	Thiamin diphosphate-binding fold (THDP-binding)
View	Download	0.321	N/A	N/A	d.204.1	Ribosome binding protein Y (YfiA homologue)
View	Download	0.320	N/A	N/A	c.57.1	Molybdenum cofactor biosynthesis proteins
View	Download	0.314	N/A	N/A	c.23.12	Formate/glycerate dehydrogenase catalytic domain-like
View	Download	0.309	N/A	N/A	b.1.18	E set domains
View	Download	0.303	N/A	N/A	c.116.1	alpha/beta knot
View	Download	0.298	N/A	N/A	d.19.1	MHC antigen-recognition domain
View	Download	0.298	N/A	N/A	c.61.1	PRTase-like
View	Download	0.297	N/A	N/A	b.60.1	Lipocalins
View	Download	0.295	N/A	N/A	c.59.1	MurD-like peptide ligases, peptide-binding domain
View	Download	0.295	N/A	N/A	a.1.1	Globin-like
View	Download	0.292	N/A	N/A	d.54.1	Enolase N-terminal domain-like
View	Download	0.289	N/A	N/A	c.55.5	MTH1175-like
View	Download	0.289	N/A	N/A	b.1.1	Immunoglobulin
View	Download	0.289	N/A	N/A	c.57.1	Molybdenum cofactor biosynthesis proteins
View	Download	0.277	N/A	N/A	c.58.1	Aminoacid dehydrogenase-like, N-terminal domain
View	Download	0.276	N/A	N/A	c.56.1	HybD-like
View	Download	0.274	N/A	N/A	b.55.1	PH domain-like
View	Download	0.265	N/A	N/A	c.51.1	Anticodon-binding domain of Class II aaRS
View	Download	0.261	N/A	N/A	c.23.1	CheY-like
View	Download	0.245	N/A	N/A	d.110.3	PYP-like sensor domain (PAS domain)
View	Download	0.245	N/A	N/A	d.93.1	SH2 domain
View	Download	0.244	N/A	N/A	c.55.3	Ribonuclease H-like
View	Download	0.234	N/A	N/A	d.15.6	Superantigen toxins, C-terminal domain
View	Download	0.232	N/A	N/A	c.95.1	Thiolase-like
View	Download	0.224	N/A	N/A	c.8.4	Transferrin receptor ectodomain, apical domain
View	Download	0.223	N/A	N/A	b.1.10	Clathrin adaptor appendage domain
View	Download	0.223	N/A	N/A	c.2.1	NAD(P)-binding Rossmann-fold domains
View	Download	0.222	N/A	N/A	d.58.16	Poly(A) polymerase, C-terminal domain
View	Download	0.222	N/A	N/A	c.51.3	B12-dependend dehydatases associated subunit
View	Download	0.222	N/A	N/A	d.19.1	MHC antigen-recognition domain
View	Download	0.218	N/A	N/A	d.58.9	RuBisCO, large subunit, small (N-terminal) domain
View	Download	0.215	N/A	N/A	b.12.1	Lipase/lipooxygenase domain (PLAT/LH2 domain)
View	Download	0.212	N/A	N/A	c.23.10	SGHN hydrolase
View	Download	0.211	N/A	N/A	c.10.1	RNI-like
View	Download	0.211	N/A	N/A	a.118.1	ARM repeat
View	Download	0.209	N/A	N/A	c.56.3	Peptidyl-tRNA hydrolase
View	Download	0.209	N/A	N/A	c.37.1	P-loop containing nucleoside triphosphate hydrolases
View	Download	0.206	N/A	N/A	d.15.1	Ubiquitin-like

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: