6BB9 | pdb_00006bb9

The crystal structure of 4-amino-4-deoxychorismate lyase from Salmonella typhimurium LT2

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	d6bb9b_	Multi-domain proteins (alpha and beta)	D-aminoacid aminotransferase-like PLP-dependent enzymes	D-aminoacid aminotransferase-like PLP-dependent enzymes	D-aminoacid aminotransferase-like PLP-dependent enzymes	automated matches	(Salmonella enterica subsp. enterica serovar Typhimurium ) [TaxId: 90371 ],	SCOPe (2.08)
A	d6bb9a1	Multi-domain proteins (alpha and beta)	D-aminoacid aminotransferase-like PLP-dependent enzymes	D-aminoacid aminotransferase-like PLP-dependent enzymes	D-aminoacid aminotransferase-like PLP-dependent enzymes	automated matches	(Salmonella enterica subsp. enterica serovar Typhimurium ) [TaxId: 90371 ],	SCOPe (2.08)
A	d6bb9a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Salmonella enterica subsp. enterica serovar Typhimurium ) [TaxId: 90371 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	D-aminoacid aminotransferase-like PLP-dependent enzymes	8078299	3001836	SCOP2B (2022-06-29)
A	SCOP2 Family	D-aminoacid aminotransferase-like PLP-dependent enzymes	8078298	4002874	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	D-aminoacid aminotransferase-like PLP-dependent enzymes	8078299	3001836	SCOP2 (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	Peptidase_S26	e6bb9B1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Peptidase_S26	ECOD (v294.1)
A	Peptidase_S26	e6bb9A1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Peptidase_S26	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.470.10	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
B	3.20.10.10	Alpha Beta	Alpha-Beta Barrel	D-amino Acid Aminotransferase	Chain A, domain 2	CATH (4.3.0)
A	3.30.470.10	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
A	3.20.10.10	Alpha Beta	Alpha-Beta Barrel	D-amino Acid Aminotransferase	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01063	Amino-transferase class IV (Aminotran_4)	Amino-transferase class IV	The D-amino acid transferases (D-AAT) are required by bacteria to catalyse the synthesis of D-glutamic acid and D-alanine, which are essential constituents of bacterial cell wall and are the building block for other D-amino acids. Despite the diff ...	The D-amino acid transferases (D-AAT) are required by bacteria to catalyse the synthesis of D-glutamic acid and D-alanine, which are essential constituents of bacterial cell wall and are the building block for other D-amino acids. Despite the difference in the structure of the substrates, D-AATs and L-ATTs have strong similarity.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	4-amino-4-deoxychorismate lyase	4-amino-4-deoxychorismate lyase activity oxo-acid-lyase activity lyase activity catalytic activity carbon-carbon lyase activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding small molecule binding	benzene-containing compound metabolic process aromatic amino acid metabolic process monocarboxylic acid biosynthetic process aromatic amino acid family biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process amino acid biosynthetic process biosynthetic process 4-aminobenzoate biosynthetic process benzene-containing compound metabolic process aromatic amino acid metabolic process monocarboxylic acid biosynthetic process aromatic amino acid family biosynthetic process oxoacid metabolic process small molecule biosynthetic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process organic acid biosynthetic process carboxylic acid biosynthetic process amino acid biosynthetic process biosynthetic process 4-aminobenzoate biosynthetic process para-aminobenzoic acid metabolic process metabolic process cellular process small molecule metabolic process monocarboxylic acid metabolic process modified amino acid biosynthetic process vitamin biosynthetic process folic acid metabolic process dicarboxylic acid biosynthetic process folic acid biosynthetic process folic acid-containing compound biosynthetic process water-soluble vitamin biosynthetic process dicarboxylic acid metabolic process modified amino acid metabolic process vitamin metabolic process folic acid-containing compound metabolic process pteridine-containing compound biosynthetic process pteridine-containing compound metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR050571	Class-IV Pyridoxal-Phosphate-Dependent Aminotransferase	Family
A, B	IPR043132	Branched-chain-amino-acid aminotransferase-like, C-terminal	Homologous Superfamily
A, B	IPR043131	Branched-chain-amino-acid aminotransferase-like, N-terminal	Homologous Superfamily
A, B	IPR001544	Aminotransferase class IV	Family
A, B	IPR017824	Aminodeoxychorismate lyase, class IV	Family
A, B	IPR036038	Aminotransferase-like, PLP-dependent enzymes	Homologous Superfamily
A, B	IPR018300	Aminotransferase, class IV, conserved site	Conserved Site

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.