3U9T | pdb_00003u9t

Crystal structure of P. aeruginosa 3-methylcrotonyl-CoA carboxylase (MCC) 750 kD holoenzyme, free enzyme

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	CN_hydrolase	e3u9tB3	A: alpha bundles	X: Fusion glycoprotein F2	H: HTH	T: winged helix domain	F: CN_hydrolase	ECOD (develop294)
A	Biotin_carb_C	e3u9tA1	A: alpha bundles	X: Repetitive alpha hairpins	H: Arginine methyltransferase oligomerization subdomain	T: Arginine methyltransferase oligomerization subdomain	F: Biotin_carb_C	ECOD (develop294)
A	MCC_alpha_BT	e3u9tA4	A: alpha bundles	X: Repetitive alpha hairpins	H: Arginine methyltransferase oligomerization subdomain	T: Arginine methyltransferase oligomerization subdomain	F: MCC_alpha_BT	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.90.226.10	Alpha Beta	Alpha-Beta Complex	2-enoyl-CoA Hydratase	Chain A, domain 1	CATH (4.3.0)
A	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
A	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
A	3.30.700.40	Alpha Beta	2-Layer Sandwich	Glycoprotein, Type 4 Pilin		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF01039	Carboxyl transferase domain (Carboxyl_trans)	Carboxyl transferase domain	-	Family
A	PF02786	Carbamoyl-phosphate synthase L chain, ATP binding domain (CPSase_L_D2)	Carbamoyl-phosphate synthase L chain, ATP binding domain	Carbamoyl-phosphate synthase catalyses the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. This important enzyme initiates both the urea cycle and the biosynthesis of arginine and/or pyrimidines [2]. The c ...	Carbamoyl-phosphate synthase catalyses the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. This important enzyme initiates both the urea cycle and the biosynthesis of arginine and/or pyrimidines [2]. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer of a small and large chain. The small chain promotes the hydrolysis of glutamine to ammonia, which is used by the large chain to synthesise carbamoyl phosphate. See Pfam:PF00988. The small chain has a GATase domain in the carboxyl terminus. See Pfam:PF00117. The ATP binding domain (this one) has an ATP-grasp fold.	Domain
A	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	PF00289	Biotin carboxylase, N-terminal domain (Biotin_carb_N)	Biotin carboxylase, N-terminal domain	This domain is structurally related to the PreATP-grasp domain. The family contains the N-terminus of biotin carboxylase enzymes [1,3], and propionyl-CoA carboxylase A chain [2].	Domain
A	PF21139	Methylcrotonyl-CoA carboxylase, alpha-subunit, BT domain (BT_MCC_alpha)	Methylcrotonyl-CoA carboxylase, alpha-subunit, BT domain	This domain is found in the biotin-containing alpha subunit of the Methylcrotonyl-CoA carboxylase complex (MCC) from Pseudomonas aeruginosa (Swiss:Q9I299) and similar proteins. MCC is essential for the metabolism of leucine. The alpha subunit is orga ...	This domain is found in the biotin-containing alpha subunit of the Methylcrotonyl-CoA carboxylase complex (MCC) from Pseudomonas aeruginosa (Swiss:Q9I299) and similar proteins. MCC is essential for the metabolism of leucine. The alpha subunit is organised into the N-terminal biotin carboxylase (BC), the C-terminal biotin carboxyl carrier protein (BCCP) domains, and a domain that mediates BC-CT interactions (BT domain, this entry). This domain shows a central alpha-helix surrounded by a seven-stranded, highly-twisted anti-parallel beta-sheet, with an overall structure that has great similarity with the beta-barrel of the BT domain of the human MCC [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Methylcrotonyl-CoA carboxylase, beta-subunit	CoA carboxylase activity methylcrotonoyl-CoA carboxylase activity ligase activity, forming carbon-carbon bonds catalytic activity ligase activity	catabolic process oxoacid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process branched-chain amino acid catabolic process carboxylic acid catabolic process small molecule metabolic process branched-chain amino acid metabolic process amino acid catabolic process L-leucine metabolic process L-leucine catabolic process L-amino acid catabolic process catabolic process oxoacid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process branched-chain amino acid catabolic process carboxylic acid catabolic process small molecule metabolic process branched-chain amino acid metabolic process amino acid catabolic process L-leucine metabolic process L-leucine catabolic process L-amino acid catabolic process carboxylic acid metabolic process primary metabolic process L-amino acid metabolic process proteinogenic amino acid metabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process metabolic process cellular process small molecule catabolic process isoprenoid catabolic process lipid catabolic process lipid metabolic process isoprenoid metabolic process	protein-containing complex catalytic complex methylcrotonoyl-CoA carboxylase complex
A	Methylcrotonyl-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 biotin carboxylase activity catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity CoA carboxylase activity methylcrotonoyl-CoA carboxylase activity ligase activity, forming carbon-carbon bonds cation binding metal ion binding	catabolic process oxoacid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process branched-chain amino acid catabolic process carboxylic acid catabolic process small molecule metabolic process branched-chain amino acid metabolic process amino acid catabolic process L-leucine metabolic process L-leucine catabolic process L-amino acid catabolic process catabolic process oxoacid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process branched-chain amino acid catabolic process carboxylic acid catabolic process small molecule metabolic process branched-chain amino acid metabolic process amino acid catabolic process L-leucine metabolic process L-leucine catabolic process L-amino acid catabolic process carboxylic acid metabolic process primary metabolic process L-amino acid metabolic process proteinogenic amino acid metabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process metabolic process cellular process small molecule catabolic process isoprenoid catabolic process lipid catabolic process lipid metabolic process isoprenoid metabolic process hydrocarbon catabolic process terpene metabolic process hydrocarbon metabolic process terpene catabolic process	protein-containing complex catalytic complex methylcrotonoyl-CoA carboxylase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR011763	Acetyl-coenzyme A carboxyltransferase, C-terminal	Domain
B	IPR029045	ClpP/crotonase-like domain superfamily	Homologous Superfamily
B	IPR011762	Acetyl-coenzyme A carboxyltransferase, N-terminal	Domain
B	IPR045190	Methylcrotonoyl-CoA carboxylase beta chain MCCB/AccD1-like	Family
B	IPR034733	Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta	Domain
A	IPR005481	Biotin carboxylase-like, N-terminal domain	Domain
A	IPR011761	ATP-grasp fold	Domain
A	IPR011764	Biotin carboxylation domain	Domain
A	IPR050856	Biotin-dependent Carboxylase Complex	Family
A	IPR005479	Carbamoyl phosphate synthase, ATP-binding domain	Domain
A	IPR005482	Biotin carboxylase, C-terminal	Domain
A	IPR048429	Methylcrotonyl-CoA carboxylase, alpha-subunit, BT domain	Domain
A	IPR016185	Pre-ATP-grasp domain superfamily	Homologous Superfamily
A	IPR011054	Rudiment single hybrid motif	Homologous Superfamily
A	IPR011053	Single hybrid motif	Homologous Superfamily
A	IPR000089	Biotin/lipoyl attachment	Domain

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.