1PT8 | pdb_00001pt8

Crystal structure of the yfdW gene product of E. coli, in complex with oxalate and acetyl-CoA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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	d1pt8b_	Alpha and beta proteins (a/b)	CoA-transferase family III (CaiB/BaiF)	CoA-transferase family III (CaiB/BaiF)	CoA-transferase family III (CaiB/BaiF)	Hypothetical protein YfdW	(Escherichia coli ) [TaxId: 562 ], (Shigella flexneri ) [TaxId: 623 ],	SCOPe (2.08)
A	d1pt8a_	Alpha and beta proteins (a/b)	CoA-transferase family III (CaiB/BaiF)	CoA-transferase family III (CaiB/BaiF)	CoA-transferase family III (CaiB/BaiF)	Hypothetical protein YfdW	(Escherichia coli ) [TaxId: 562 ], (Shigella flexneri ) [TaxId: 623 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	CoA-transferase family III (CaiB/BaiF)	8039793	3000607	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CoA-transferase family III (CaiB/BaiF)	8039793	3000607	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Pribosyltran	e1pt8B1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Pribosyltran	ECOD (develop294)
A	Pribosyltran	e1pt8A1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Pribosyltran	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.10540	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Crotonobetainyl-coa:carnitine coa-transferase	CATH (4.3.0)
B	3.30.1540.10	Alpha Beta	2-Layer Sandwich	formyl-coa transferase, domain 3	formyl-coa transferase, domain 3	CATH (4.3.0)
A	3.40.50.10540	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Crotonobetainyl-coa:carnitine coa-transferase	CATH (4.3.0)
A	3.30.1540.10	Alpha Beta	2-Layer Sandwich	formyl-coa transferase, domain 3	formyl-coa transferase, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02515	CoA-transferase family III (CoA_transf_3)	CoA-transferase family III	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Hypothetical protein yfdW	formyl-CoA transferase activity transferase activity, transferring sulphur-containing groups transferase activity catalytic activity CoA-transferase activity	oxalate catabolic process catabolic process oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process dicarboxylic acid catabolic process organic acid metabolic process organic acid catabolic process oxalate metabolic process carboxylic acid catabolic process small molecule metabolic process metabolic process cellular process small molecule catabolic process oxalate catabolic process catabolic process oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process dicarboxylic acid catabolic process organic acid metabolic process organic acid catabolic process oxalate metabolic process carboxylic acid catabolic process small molecule metabolic process metabolic process cellular process small molecule catabolic process cellular response to stimulus response to stimulus response to pH cellular response to pH response to abiotic stimulus cellular response to acidic pH response to acidic pH cellular response to abiotic stimulus cellular response to environmental stimulus	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR023606	CoA-transferase family III domain 1 superfamily	Homologous Superfamily
A, B	IPR050483	CoA-transferase III domain-containing protein	Family
A, B	IPR044855	CoA-transferase family III domain 3 superfamily	Homologous Superfamily
A, B	IPR003673	CoA-transferase family III	Family
A, B	IPR017659	Formyl-CoA:oxalate CoA-transferase	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.