5YGR | pdb_00005ygr

Crystal structure of PLP bound Diaminopropionate ammonia lyase from Salmonella typhimurium

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	PALP	e5ygrD1	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains	T: HUP domains	F: PALP	ECOD (v294.1)
C	PALP	e5ygrC1	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains	T: HUP domains	F: PALP	ECOD (v294.1)
B	PALP	e5ygrB1	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains	T: HUP domains	F: PALP	ECOD (v294.1)
A	PALP	e5ygrA1	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains	T: HUP domains	F: PALP	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.1100	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	3.40.50.1100	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.40.50.1100	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.40.50.1100	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, C, D	PF00291	Pyridoxal-phosphate dependent enzyme (PALP)	Pyridoxal-phosphate dependent enzyme	-	Family
A	PF00291	Pyridoxal-phosphate dependent enzyme (PALP)	Pyridoxal-phosphate dependent enzyme	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C, D	Diaminopropionate ammonia lyase	diaminopropionate ammonia-lyase activity lyase activity ammonia-lyase activity catalytic activity carbon-nitrogen lyase activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding small molecule binding	-	-
A	Diaminopropionate ammonia lyase	diaminopropionate ammonia-lyase activity lyase activity ammonia-lyase activity catalytic activity carbon-nitrogen lyase activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C, D	IPR036052	Tryptophan synthase beta chain-like, PALP domain superfamily	Homologous Superfamily
B, C, D	IPR001926	Tryptophan synthase beta chain-like, PALP domain	Domain
B, C, D	IPR010081	Diaminopropionate ammonia-lyase	Family
B, C, D	IPR019871	Diaminopropionate ammonia-lyase, subgroup	Family
A	IPR036052	Tryptophan synthase beta chain-like, PALP domain superfamily	Homologous Superfamily
A	IPR001926	Tryptophan synthase beta chain-like, PALP domain	Domain
A	IPR010081	Diaminopropionate ammonia-lyase	Family
A	IPR019871	Diaminopropionate ammonia-lyase, subgroup	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B, C, D	LLP	Parent Component: LYS RESID: AA0119 PSI-MOD : N6-pyridoxal phosphate-L-lysine MOD:00128
A	LLP	Parent Component: LYS RESID: AA0119 , AA0119 PSI-MOD : N6-pyridoxal phosphate-L-lysine MOD:00128 , N6-pyridoxal phosphate-L-lysine MOD:00128

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.