6JY1

Crystal Structure of a Group II pyridoxal dependent decarboxylase, LLP-bound form from Methanocaldococcus jannaschii at 1.72 A

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)
A	F_UNCLASSIFIED	e6jy1A1	A: a+b two layers	X: C-terminal domain in some PLP-dependent transferases (From Topology)	H: C-terminal domain in some PLP-dependent transferases (From Topology)	T: C-terminal domain in some PLP-dependent transferases	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF00282	e6jy1A2	A: a/b three-layered sandwiches	X: PLP-dependent transferases (From Topology)	H: PLP-dependent transferases (From Topology)	T: PLP-dependent transferases	F: PF00282	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.1150.10	Alpha Beta	Alpha-Beta Complex	Aspartate Aminotransferase, domain 1	Aspartate Aminotransferase, domain 1	CATH (utative)
A	3.40.640.10	Alpha Beta	3-Layer(aba) Sandwich	Aspartate Aminotransferase	domain 2	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00282	Pyridoxal-dependent decarboxylase conserved domain (Pyridoxal_deC)	Pyridoxal-dependent decarboxylase conserved domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	L-tyrosine/L-aspartate decarboxylase	carboxy-lyase activity lyase activity tyrosine decarboxylase activity catalytic activity carbon-carbon lyase activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding organic cyclic compound binding anion binding heterocyclic compound binding small molecule binding carboxy-lyase activity lyase activity tyrosine decarboxylase activity catalytic activity carbon-carbon lyase activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding organic cyclic compound binding anion binding heterocyclic compound binding small molecule binding sphinganine-1-phosphate aldolase activity aldehyde-lyase activity aspartate 1-decarboxylase activity	biosynthetic process methanofuran metabolic process metabolic process methanofuran biosynthetic process sphingolipid catabolic process organonitrogen compound catabolic process membrane lipid metabolic process catabolic process organonitrogen compound metabolic process lipid catabolic process cellular metabolic process primary metabolic process sphingolipid metabolic process membrane lipid catabolic process biosynthetic process methanofuran metabolic process metabolic process methanofuran biosynthetic process sphingolipid catabolic process organonitrogen compound catabolic process membrane lipid metabolic process catabolic process organonitrogen compound metabolic process lipid catabolic process cellular metabolic process primary metabolic process sphingolipid metabolic process membrane lipid catabolic process cellular lipid catabolic process cellular catabolic process cellular lipid metabolic process cellular process lipid metabolic process oxoacid metabolic process carboxylic acid metabolic process small molecule metabolic process organic acid metabolic process ribose phosphate metabolic process nucleoside bisphosphate metabolic process coenzyme A biosynthetic process ribonucleoside bisphosphate biosynthetic process purine nucleoside bisphosphate metabolic process ribonucleoside bisphosphate metabolic process nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process phosphate-containing compound metabolic process purine nucleoside bisphosphate biosynthetic process phosphorus metabolic process ribose phosphate biosynthetic process coenzyme A metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process nucleoside bisphosphate biosynthetic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR015421	Pyridoxal phosphate-dependent transferase, major domain	Homologous Superfamily
A	IPR015422	Pyridoxal phosphate-dependent transferase, small domain	Homologous Superfamily
A	IPR020931	Decarboxylase MfnA, archaea	Family
A	IPR015424	Pyridoxal phosphate-dependent transferase	Homologous Superfamily
A	IPR002129	Pyridoxal phosphate-dependent decarboxylase	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	LLP	Parent Component: LYS RESID: AA0119 PSI-MOD : 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 R01GM133198.