5K87 | pdb_00005k87

crystal structure of malonate bound to methylaconitate isomerase PrpF from Shewanella oneidensis

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d5k87b1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	automated matches	automated matches	(Shewanella oneidensis MR-1 ) [TaxId: 211586 ],	SCOPe (2.08)
A	d5k87a1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	automated matches	automated matches	(Shewanella oneidensis MR-1 ) [TaxId: 211586 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PrpF	e5k87B1	A: a+b complex topology	X: Diaminopimelate epimerase-like (From Topology)	H: Diaminopimelate epimerase-like (From Topology)	T: Diaminopimelate epimerase-like	F: PrpF	ECOD (1.6)
A	PrpF	e5k87A1	A: a+b complex topology	X: Diaminopimelate epimerase-like (From Topology)	H: Diaminopimelate epimerase-like (From Topology)	T: Diaminopimelate epimerase-like	F: PrpF	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
A	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF04303	PrpF protein (PrpF)	PrpF protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	2-methyl-aconitate isomerase	isomerase activity intramolecular oxidoreductase activity, transposing C=C bonds intramolecular oxidoreductase activity catalytic activity	fatty acid metabolic process short-chain fatty acid catabolic process lipid catabolic process catabolic process oxoacid metabolic process short-chain fatty acid metabolic process carboxylic acid metabolic process primary metabolic process organic acid metabolic process organic acid catabolic process fatty acid catabolic process propionate catabolic process propionate catabolic process, 2-methylcitrate cycle monocarboxylic acid catabolic process carboxylic acid catabolic process fatty acid metabolic process short-chain fatty acid catabolic process lipid catabolic process catabolic process oxoacid metabolic process short-chain fatty acid metabolic process carboxylic acid metabolic process primary metabolic process organic acid metabolic process organic acid catabolic process fatty acid catabolic process propionate catabolic process propionate catabolic process, 2-methylcitrate cycle monocarboxylic acid catabolic process carboxylic acid catabolic process metabolic process cellular process small molecule metabolic process monocarboxylic acid metabolic process small molecule catabolic process lipid metabolic process propionate metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR012709	2-methyl-aconitate isomerase PrpF	Family
A, B	IPR007400	PrpF-like	Family

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.