6YBP | pdb_00006ybp

Propionyl-CoA carboxylase of Methylorubrum extorquens with bound CoA

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	Utp12	e6ybpL1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
K	Utp12	e6ybpK1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
J	Utp12	e6ybpJ1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
I	Utp12	e6ybpI1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
H	Utp12	e6ybpH1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
G	Utp12	e6ybpG1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
F	Utp12	e6ybpF1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
E	Utp12	e6ybpE1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
D	Utp12	e6ybpD1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
C	Utp12	e6ybpC1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
B	Utp12	e6ybpB1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)
A	Utp12	e6ybpA1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Utp12	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G, H, I, J, K G, H, I, J, K, L	PF18140	Propionyl-coenzyme A carboxylase BT domain (PCC_BT)	Propionyl-coenzyme A carboxylase BT domain	This domain is found in Propionyl-coenzyme A carboxylase (PCC), present in Roseobacter denitrificans. PCC is a mitochondrial biotin-dependent enzyme that is essential for the catabolism of certain amino acids, cholesterol, and fatty acids with an odd ...	This domain is found in Propionyl-coenzyme A carboxylase (PCC), present in Roseobacter denitrificans. PCC is a mitochondrial biotin-dependent enzyme that is essential for the catabolism of certain amino acids, cholesterol, and fatty acids with an odd number of carbon atoms. Since this domain mediates biotin carboxylase-carboxyltransferase interactions it is referred to as the BT domain. The BT domain is located between biotin carboxylase and the biotin carboxyl carrier protein domains. The BT domain shares some structural similarity with the pyruvate carboxylase tetramerization domain of pyruvate carboxylase [1].	Domain
G, H, I, J, K G, H, I, J, K, L	PF00364	Biotin-requiring enzyme (Biotin_lipoyl)	Biotin-requiring enzyme	This family covers two Prosite entries, the conserved lysine residue binds biotin in one group and lipoic acid in the other. Note that the HMM does not currently recognise the Glycine cleavage system H proteins.	Domain
G, H, I, J, K G, H, I, J, K, L	PF02785	Biotin carboxylase C-terminal domain (Biotin_carb_C)	Biotin carboxylase C-terminal domain	Biotin carboxylase is a component of the acetyl-CoA carboxylase multi-component enzyme which catalyses the first committed step in fatty acid synthesis in animals, plants and bacteria. Most of the active site residues reported in reference [1] are in ...	Biotin carboxylase is a component of the acetyl-CoA carboxylase multi-component enzyme which catalyses the first committed step in fatty acid synthesis in animals, plants and bacteria. Most of the active site residues reported in reference [1] are in this C-terminal domain.	Domain
A, B, C, D, E A, B, C, D, E, F	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
G, H, I, J, K G, H, I, J, K, L	Propionyl-CoA carboxylase alpha subunit	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding CoA carboxylase activity propionyl-CoA carboxylase activity ligase activity, forming carbon-carbon bonds catalytic activity ligase activity cation binding metal ion binding	lipid catabolic process catabolic process metabolic process cellular process primary metabolic process lipid metabolic process	-
A, B, C, D, E A, B, C, D, E, F	Propionyl-CoA carboxylase beta chain	CoA carboxylase activity acetyl-CoA carboxylase activity ligase activity, forming carbon-carbon bonds catalytic activity ligase activity propionyl-CoA carboxylase activity	metabolic process cellular process carbon fixation	acetyl-CoA carboxylase complex protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G, H, I, J, K G, H, I, J, K, L	IPR005481	Biotin carboxylase-like, N-terminal domain	Domain
G, H, I, J, K G, H, I, J, K, L	IPR011761	ATP-grasp fold	Domain
G, H, I, J, K G, H, I, J, K, L	IPR011764	Biotin carboxylation domain	Domain
G, H, I, J, K G, H, I, J, K, L	IPR050856	Biotin-dependent Carboxylase Complex	Family
G, H, I, J, K G, H, I, J, K, L	IPR005479	Carbamoyl phosphate synthase, ATP-binding domain	Domain
G, H, I, J, K G, H, I, J, K, L	IPR005482	Biotin carboxylase, C-terminal	Domain
G, H, I, J, K G, H, I, J, K, L	IPR016185	Pre-ATP-grasp domain superfamily	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR011054	Rudiment single hybrid motif	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR041265	Propionyl-coenzyme A carboxylase, BT domain	Domain
G, H, I, J, K G, H, I, J, K, L	IPR011053	Single hybrid motif	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR001882	Biotin-binding site	Binding Site
G, H, I, J, K G, H, I, J, K, L	IPR000089	Biotin/lipoyl attachment	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011763	Acetyl-coenzyme A carboxyltransferase, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR029045	ClpP/crotonase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR011762	Acetyl-coenzyme A carboxyltransferase, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR034733	Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta	Domain
A, B, C, D, E A, B, C, D, E, F	IPR051047	Acyl-CoA Carboxylase Beta Subunit	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.