1J93

Crystal Structure and Substrate Binding Modeling of the Uroporphyrinogen-III Decarboxylase from Nicotiana tabacum: Implications for the Catalytic Mechanism

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)
A	d1j93a_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	UROD/MetE-like	Uroporphyrinogen decarboxylase, UROD	Uroporphyrinogen decarboxylase, UROD	common tobacco (Nicotiana tabacum ) [TaxId: 4097 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Uroporphyrinogen decarboxylase UROD	8024461	4003345	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	UROD/MetE-like	8036840	3000657	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)
A	PF01208	e1j93A1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF01208	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.210	Alpha Beta	Alpha-Beta Barrel	TIM Barrel		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01208	Uroporphyrinogen decarboxylase (URO-D) (URO-D)	Uroporphyrinogen decarboxylase (URO-D)	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	UROPORPHYRINOGEN DECARBOXYLASE	uroporphyrinogen decarboxylase activity carboxy-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	pigment metabolic process heme metabolic process porphyrin-containing compound biosynthetic process organonitrogen compound metabolic process tetrapyrrole metabolic process heme biosynthetic process protoporphyrinogen IX metabolic process organonitrogen compound biosynthetic process pigment biosynthetic process organic cyclic compound metabolic process protoporphyrinogen IX biosynthetic process organic substance metabolic process tetrapyrrole biosynthetic process biosynthetic process organic cyclic compound biosynthetic process pigment metabolic process heme metabolic process porphyrin-containing compound biosynthetic process organonitrogen compound metabolic process tetrapyrrole metabolic process heme biosynthetic process protoporphyrinogen IX metabolic process organonitrogen compound biosynthetic process pigment biosynthetic process organic cyclic compound metabolic process protoporphyrinogen IX biosynthetic process organic substance metabolic process tetrapyrrole biosynthetic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process porphyrin-containing compound metabolic process chlorophyll metabolic process chlorophyll biosynthetic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure plastid organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle chloroplast

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006361	Uroporphyrinogen decarboxylase HemE	Family
A	IPR038071	UROD/MetE-like superfamily	Homologous Superfamily
A	IPR000257	Uroporphyrinogen decarboxylase (URO-D)	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.