1JR2

Structure of Uroporphyrinogen III Synthase

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
Pharos: Disease Associations
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1jr2a_	Alpha and beta proteins (a/b)	HemD-like	HemD-like	HemD-like	Uroporphyrinogen III synthase (U3S, HemD)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1jr2b_	Alpha and beta proteins (a/b)	HemD-like	HemD-like	HemD-like	Uroporphyrinogen III synthase (U3S, HemD)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	HemD-like	8024889	4003361	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	HemD-like	8037268	3000689	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	HemD-like	8037268	3000689	SCOP2B (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	HEM4	e1jr2A1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Uroporphyrinogen III synthase (U3S, HemD)	F: HEM4	ECOD (1.6)
A	HEM4_1	e1jr2A2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Uroporphyrinogen III synthase (U3S, HemD)	F: HEM4_1	ECOD (1.6)
B	HEM4	e1jr2B1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Uroporphyrinogen III synthase (U3S, HemD)	F: HEM4	ECOD (1.6)
B	HEM4_1	e1jr2B2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Uroporphyrinogen III synthase (U3S, HemD)	F: HEM4_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.10090	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.40.50.10090	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02602	Uroporphyrinogen-III synthase HemD (HEM4)	Uroporphyrinogen-III synthase HemD	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	UROPORPHYRINOGEN-III SYNTHASE	amide binding organic acid binding binding modified amino acid binding vitamin binding ion binding organic cyclic compound binding folic acid binding anion binding carboxylic acid binding heterocyclic compound binding small molecule binding hydro-lyase activity uroporphyrinogen-III synthase activity amide binding organic acid binding binding modified amino acid binding vitamin binding ion binding organic cyclic compound binding folic acid binding anion binding carboxylic acid binding heterocyclic compound binding small molecule binding hydro-lyase activity uroporphyrinogen-III synthase activity lyase activity catalytic activity carbon-oxygen lyase activity	heme A biosynthetic process pigment metabolic process heme metabolic process porphyrin-containing compound biosynthetic process organonitrogen compound metabolic process tetrapyrrole metabolic process heme biosynthetic process organonitrogen compound biosynthetic process pigment biosynthetic process organic cyclic compound metabolic process organic substance metabolic process tetrapyrrole biosynthetic process biosynthetic process organic cyclic compound biosynthetic process heme a metabolic process heme A biosynthetic process pigment metabolic process heme metabolic process porphyrin-containing compound biosynthetic process organonitrogen compound metabolic process tetrapyrrole metabolic process heme biosynthetic process organonitrogen compound biosynthetic process pigment biosynthetic process organic cyclic compound metabolic process organic substance metabolic process tetrapyrrole biosynthetic process biosynthetic process organic cyclic compound biosynthetic process heme a metabolic process organic substance biosynthetic process metabolic process porphyrin-containing compound metabolic process response to stimulus response to metal ion response to chemical response to platinum ion response to inorganic substance oxoacid metabolic process cellular biosynthetic process uroporphyrinogen III metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process small molecule metabolic process small molecule biosynthetic process cellular metabolic process carboxylic acid metabolic process cellular process uroporphyrinogen III biosynthetic process cellular response to arsenic-containing substance cellular response to stimulus cellular response to chemical stimulus response to arsenic-containing substance heme O metabolic process heme O biosynthetic process protoporphyrinogen IX metabolic process protoporphyrinogen IX biosynthetic process heme B biosynthetic process heme B metabolic process cellular response to nitrogen compound response to amine response to organic substance response to organonitrogen compound response to endogenous stimulus response to nitrogen compound cellular response to amine stimulus cellular response to endogenous stimulus cellular response to organonitrogen compound cellular response to organic substance	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036108	Tetrapyrrole biosynthesis, uroporphyrinogen III synthase superfamily	Homologous Superfamily
A, B	IPR039793	Uroporphyrinogen-III synthase	Family
A, B	IPR003754	Tetrapyrrole biosynthesis, uroporphyrinogen III synthase	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P10746	cutaneous porphyria inherited porphyria astrocytic tumor Cytopenia hydrops fetalis intellectual disability malignant glioma ovarian cancer congenital anemia inborn errors of metabolism large cell medulloblastoma medulloblastoma glioblastoma malignant ependymoma osteosarcoma cutaneous porphyria inherited porphyria astrocytic tumor Cytopenia hydrops fetalis intellectual disability malignant glioma ovarian cancer congenital anemia inborn errors of metabolism large cell medulloblastoma medulloblastoma glioblastoma malignant ependymoma osteosarcoma subependymal giant cell astrocytoma

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
--	uroporphyrinogen-III synthase M-CSA #204	uroporphyrinogen III synthase (URO3S) catalyses the conversion of hydroxymethylbilane (HMB) to uroporphyrinogen III, a reaction involving ring closure and intramolecular rearrangement in which the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule is linked to the first pyrrole unit (ring A). Uroporphyrinogen III represents a branch point for the pathways leading to formation of a wide variety of porphyrins, including heme, chlorophyll and corrins. Porphyrins act as cofactors for a multitude of enzymes that perform a variety of processes within the cell such as methionine synthesis (vitamin B12) or oxygen transport (heme). Deficiencies of URO3S in vivo are associated with congenital erythropoietic porphyria.	No annotated residues. Motifs without residues cannot be visualized. At least 2 residues must be present to support Structure Motif searching.

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.