1SR8 | pdb_00001sr8

Structural Genomics, 1.9A crystal structure of cobalamin biosynthesis protein (cbiD) from Archaeoglobus fulgidus

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	d1sr8a_	Multi-domain proteins (alpha and beta)	CbiD-like	CbiD-like	CbiD-like	Cobalamin biosynthesis protein CbiD	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	CbiD-like	8027357	4002972	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CbiD-like	8039736	3001960	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	CbiD	e1sr8A2	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: CbiD	ECOD (1.6)
A	EUF08427	e1sr8A1	A: a+b two layers	X: CbiD-like (Pfam 01888) N-terminal domain (From Topology)	H: CbiD-like (Pfam 01888) N-terminal domain (From Topology)	T: CbiD-like (Pfam 01888) N-terminal domain	F: EUF08427	ECOD (1.6)
A	cbiD	e1sr8A3	A: a/b three-layered sandwiches	X: Rossmann-like domain in CbiD (From Topology)	H: Rossmann-like domain in CbiD (From Topology)	T: Rossmann-like domain in CbiD	F: cbiD	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1990.10	Alpha Beta	2-Layer Sandwich	CbiD-like	CbiD-like	CATH (4.3.0)
A	3.30.2110.10	Alpha Beta	2-Layer Sandwich	CbiD-like	CbiD-like	CATH (4.3.0)
A	3.40.50.10720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	CbiD-like domains	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01888	CbiD (CbiD)	CbiD	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	cobalamin biosynthesis protein (cbiD)	cobalt-precorrin-5B C1-methyltransferase activity transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity	methylation metabolic process cellular process cobalamin metabolic process cobalamin biosynthetic process water-soluble vitamin biosynthetic process tetrapyrrole metabolic process anaerobic cobalamin biosynthetic process small molecule biosynthetic process vitamin biosynthetic process vitamin metabolic process tetrapyrrole biosynthetic process biosynthetic process small molecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036074	CbiD superfamily	Homologous Superfamily
A	IPR002748	Cobalt-precorrin-5B C(1)-methyltransferase CbiD	Family

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.