2VZK | pdb_00002vzk

Structure of the acyl-enzyme complex of an N-terminal nucleophile (Ntn) hydrolase, OAT2

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	ArgJ, C-terminal domain	8053799	3002225	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	ArgJ, C-terminal domain	8053799	3002225	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ArgJ, C-terminal domain	8053799	3002225	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ArgJ, C-terminal domain	8053799	3002225	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	DmpA/ArgJ-like	8041565	3001033	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DmpA/ArgJ-like	8041565	3001033	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DmpA/ArgJ-like	8041565	3001033	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DmpA/ArgJ-like	8041565	3001033	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H	e2vzkH2	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: Med26	F:	ECOD (20:10:01)
H	e2vzkH3	A: DP domain	X: DP domain	H: DP domain	T: YonK	F:	ECOD (20:10:01)
F	e2vzkF2	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: Med26	F:	ECOD (20:10:01)
D	e2vzkD2	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: Med26	F:	ECOD (20:10:01)
B	e2vzkB2	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: Med26	F:	ECOD (20:10:01)
G	e2vzkG1	A: Rossmann-like	X: Rossmann-related	H: Nucleotide-binding domain	T: Chalcone_N	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.30.2330.10	Alpha Beta	2-Layer Sandwich	arginine biosynthesis bifunctional protein fold	arginine biosynthesis bifunctional protein suprefamily	CATH (4.3.0)
H	3.10.20.340	Alpha Beta	Roll	Ubiquitin-like (UB roll)	ArgJ beta chain, C-terminal domain	CATH (4.3.0)
F	3.30.2330.10	Alpha Beta	2-Layer Sandwich	arginine biosynthesis bifunctional protein fold	arginine biosynthesis bifunctional protein suprefamily	CATH (4.3.0)
F	3.10.20.340	Alpha Beta	Roll	Ubiquitin-like (UB roll)	ArgJ beta chain, C-terminal domain	CATH (4.3.0)
D	3.30.2330.10	Alpha Beta	2-Layer Sandwich	arginine biosynthesis bifunctional protein fold	arginine biosynthesis bifunctional protein suprefamily	CATH (4.3.0)
D	3.10.20.340	Alpha Beta	Roll	Ubiquitin-like (UB roll)	ArgJ beta chain, C-terminal domain	CATH (4.3.0)
B	3.30.2330.10	Alpha Beta	2-Layer Sandwich	arginine biosynthesis bifunctional protein fold	arginine biosynthesis bifunctional protein suprefamily	CATH (4.3.0)
B	3.10.20.340	Alpha Beta	Roll	Ubiquitin-like (UB roll)	ArgJ beta chain, C-terminal domain	CATH (4.3.0)
G	3.60.70.12	Alpha Beta	4-Layer Sandwich	L-amino peptidase D-ALA esterase/amidase	L-amino peptidase D-ALA esterase/amidase	CATH (4.3.0)
E	3.60.70.12	Alpha Beta	4-Layer Sandwich	L-amino peptidase D-ALA esterase/amidase	L-amino peptidase D-ALA esterase/amidase	CATH (4.3.0)
C	3.60.70.12	Alpha Beta	4-Layer Sandwich	L-amino peptidase D-ALA esterase/amidase	L-amino peptidase D-ALA esterase/amidase	CATH (4.3.0)
A	3.60.70.12	Alpha Beta	4-Layer Sandwich	L-amino peptidase D-ALA esterase/amidase	L-amino peptidase D-ALA esterase/amidase	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, F, H	GLUTAMATE N-ACETYLTRANSFERASE 2 BETA CHAIN	acetyltransferase activity N-acetyltransferase activity acyltransferase activity L-glutamate N-acetyltransferase activity, acting on acetyl-L-ornithine as donor acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity L-amino-acid N-acetyltransferase activity N-acyltransferase activity L-glutamate N-acetyltransferase activity	L-arginine biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process L-amino acid biosynthetic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process L-glutamine family amino acid biosynthetic process L-amino acid metabolic process carboxylic acid biosynthetic process arginine metabolic process proteinogenic amino acid metabolic process L-arginine biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process L-amino acid biosynthetic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process L-glutamine family amino acid biosynthetic process L-amino acid metabolic process carboxylic acid biosynthetic process arginine metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process proteinogenic amino acid biosynthetic process metabolic process cellular process small molecule metabolic process alpha-amino acid biosynthetic process ornithine metabolic process ornithine biosynthetic process non-proteinogenic amino acid metabolic process non-proteinogenic amino acid biosynthetic process clavulanic acid biosynthetic process monocarboxylic acid biosynthetic process lactam biosynthetic process lactam metabolic process monocarboxylic acid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm
B	GLUTAMATE N-ACETYLTRANSFERASE 2 BETA CHAIN	acetyltransferase activity N-acetyltransferase activity acyltransferase activity L-glutamate N-acetyltransferase activity, acting on acetyl-L-ornithine as donor acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity L-amino-acid N-acetyltransferase activity N-acyltransferase activity L-glutamate N-acetyltransferase activity	L-arginine biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process L-amino acid biosynthetic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process L-glutamine family amino acid biosynthetic process L-amino acid metabolic process carboxylic acid biosynthetic process arginine metabolic process proteinogenic amino acid metabolic process L-arginine biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process L-amino acid biosynthetic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process L-glutamine family amino acid biosynthetic process L-amino acid metabolic process carboxylic acid biosynthetic process arginine metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process proteinogenic amino acid biosynthetic process metabolic process cellular process small molecule metabolic process alpha-amino acid biosynthetic process ornithine metabolic process ornithine biosynthetic process non-proteinogenic amino acid metabolic process non-proteinogenic amino acid biosynthetic process clavulanic acid biosynthetic process monocarboxylic acid biosynthetic process lactam biosynthetic process lactam metabolic process monocarboxylic acid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm
A, C, E, G	GLUTAMATE N-ACETYLTRANSFERASE 2 ALPHA CHAIN	acetyltransferase activity N-acetyltransferase activity acyltransferase activity L-glutamate N-acetyltransferase activity, acting on acetyl-L-ornithine as donor acyltransferase activity, transferring groups other than amino-acyl groups transferase activity catalytic activity L-amino-acid N-acetyltransferase activity N-acyltransferase activity L-glutamate N-acetyltransferase activity	L-arginine biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process L-amino acid biosynthetic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process L-glutamine family amino acid biosynthetic process L-amino acid metabolic process carboxylic acid biosynthetic process arginine metabolic process proteinogenic amino acid metabolic process L-arginine biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process L-amino acid biosynthetic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process L-glutamine family amino acid biosynthetic process L-amino acid metabolic process carboxylic acid biosynthetic process arginine metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process proteinogenic amino acid biosynthetic process metabolic process cellular process small molecule metabolic process alpha-amino acid biosynthetic process ornithine metabolic process ornithine biosynthetic process non-proteinogenic amino acid metabolic process non-proteinogenic amino acid biosynthetic process clavulanic acid biosynthetic process monocarboxylic acid biosynthetic process lactam biosynthetic process lactam metabolic process monocarboxylic acid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, F, H	IPR002813	Arginine biosynthesis protein ArgJ	Family
D, F, H	IPR042195	ArgJ beta chain, C-terminal domain	Homologous Superfamily
D, F, H	IPR016117	ArgJ-like domain superfamily	Homologous Superfamily
B	IPR002813	Arginine biosynthesis protein ArgJ	Family
B	IPR042195	ArgJ beta chain, C-terminal domain	Homologous Superfamily
B	IPR016117	ArgJ-like domain superfamily	Homologous Superfamily
A, C, E, G	IPR002813	Arginine biosynthesis protein ArgJ	Family
A, C, E, G	IPR042195	ArgJ beta chain, C-terminal domain	Homologous Superfamily
A, C, E, G	IPR016117	ArgJ-like domain superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
D, F, H	TH5	Parent Component: THR RESID: AA0423 PSI-MOD : O-acetyl-L-threonine MOD:01171

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.

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