1XNY

Biotin and propionyl-CoA bound to Acyl-CoA Carboxylase Beta Subunit from S. coelicolor (PccB)

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
Structure Motif: Primary M-CSA Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1xnya1	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Biotin dependent carboxylase carboxyltransferase domain	Propionyl-CoA carboxylase complex B subunit, PccB	(Streptomyces coelicolor ) [TaxId: 1902 ],	SCOPe (2.08)
B	d1xnyb1	Alpha and beta proteins (a/b)	ClpP/crotonase	ClpP/crotonase	Biotin dependent carboxylase carboxyltransferase domain	Propionyl-CoA carboxylase complex B subunit, PccB	(Streptomyces coelicolor ) [TaxId: 1902 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Biotin dependent carboxylase carboxyltransferase domain	8031700	4000456	SCOP2 (2022-06-29)
A	SCOP2 Family	Biotin dependent carboxylase carboxyltransferase domain	8031701	4000456	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ClpP/crotonase	8044078	3000033	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ClpP/crotonase	8044079	3000033	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	ClpP/crotonase	8044079	3000033	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ClpP/crotonase	8044078	3000033	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)
A	Carboxyl_trans_C	e1xnyA1	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: Carboxyl_trans_C	ECOD (1.6)
B	Carboxyl_trans_C	e1xnyB1	A: a/b three-layered sandwiches	X: ClpP/crotonase (From Topology)	H: ClpP/crotonase (From Topology)	T: ClpP/crotonase	F: Carboxyl_trans_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
B	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01039	Carboxyl transferase domain (Carboxyl_trans)	Carboxyl transferase domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	propionyl-CoA carboxylase complex B subunit	CoA carboxylase activity acetyl-CoA carboxylase activity ligase activity, forming carbon-carbon bonds catalytic activity ligase activity	fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular metabolic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process biosynthetic process cellular lipid metabolic process fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular metabolic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process biosynthetic process cellular lipid metabolic process small molecule metabolic process metabolic process cellular process monocarboxylic acid metabolic process lipid metabolic process	acetyl-CoA carboxylase complex protein-containing complex intracellular anatomical structure catalytic complex cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR011763	Acetyl-coenzyme A carboxyltransferase, C-terminal	Domain
A, B	IPR029045	ClpP/crotonase-like domain superfamily	Homologous Superfamily
A, B	IPR011762	Acetyl-coenzyme A carboxyltransferase, N-terminal	Domain
A, B	IPR000438	Acetyl-CoA carboxylase carboxyl transferase, beta subunit	Family
A, B	IPR034733	Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta	Domain
A, B	IPR051047	Acyl-CoA Carboxylase Beta Subunit	Family

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A, B	propionyl-CoA carboxylase M-CSA #201	Propionyl-CoA carboxylase (PCC) from Streptomyces coelicolor catalyses the carboxylation of proprionyl-CoA (and, less efficiently, butyryl-CoA) to provide methylmalonyl-CoA (or ethylmalonyl-CoA). This carboxylation reaction provides key extender units for the biosynthesis of fatty acids and polyketide natural products. PCC has three units, pccA, pccB and pccE. The alpha subunit (pccA) contains the BCCP (biotin carboxyl carrier protein) and BC (biotin carboxylase) domains. The beta subunit (pccB) contains the carboxyltransferase (CT) function, which transfers the carboxyl group from biotin to propionyl-CoA [PMID:15518551]. BC catalyses carboxylation of the biotin attached to the biotin carboxyl carrier protein (BCCP) in the first half reaction which requires ATP Mg(II) and bicarbonate [PMID:2673009]. CT catalyses the second half reaction, the carboxyl transfer from biotin to propanoyl-CoA [PMID:2673009, PMID:15518551]. pccE may act to associate pccA and pccB. The pccB unit shows sequence and structure homology with other carboxyltransferases from other organisms. They are all dimers or hexamers, with the monomers comprising two domains; two active sites run between each pair of adjacent monomers, with catalytic residues being contributed from the C-terminal domain from one monomer and the N-terminal domain from the next monomer.	Defined by 4 residues: GLY:A-182GLY:A-183GLY:B-419ALA:B-420 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 6.4.1.3 (PDB Primary Data) Search M-CSA Motif + EC 6.4.1.3

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.