1WD7 | pdb_00001wd7

Crystal Structure of Uroporphyrinogen III Synthase from an Extremely Thermophilic Bacterium Thermus thermophilus HB8 (Wild type, Native, Form-2 crystal)

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	d1wd7b1	Alpha and beta proteins (a/b)	HemD-like	HemD-like	HemD-like	Probable uroporphyrinogen-III synthase	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
B	d1wd7b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
A	d1wd7a1	Alpha and beta proteins (a/b)	HemD-like	HemD-like	HemD-like	Probable uroporphyrinogen-III synthase	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
A	d1wd7a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	HemD-like	8043420	3000689	SCOP2B (2022-06-29)
A	SCOP2 Family	HemD-like	8031042	4003361	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	HemD-like	8043420	3000689	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	HEM4	e1wd7B1	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	e1wd7A1	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.10090	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	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	hydro-lyase activity uroporphyrinogen-III synthase activity lyase activity catalytic activity carbon-oxygen lyase activity	porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process uroporphyrinogen III metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process tetrapyrrole biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process uroporphyrinogen III metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process tetrapyrrole biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process uroporphyrinogen III biosynthetic process porphyrin-containing compound metabolic process	-

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

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.