2BB3 | pdb_00002bb3

Crystal Structure of Cobalamin Biosynthesis Precorrin-6Y Methylase (cbiE) 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)
B	d2bb3b2	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Precorrin-6y methylase CbiE	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)
B	d2bb3b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)
A	d2bb3a1	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Precorrin-6y methylase CbiE	(Archaeoglobus fulgidus DSM 4304 ) [TaxId: 224325 ],	SCOPe (2.08)
A	d2bb3a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(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)
B	SCOP2B Superfamily	Tetrapyrrole methylase	8057811	3000017	SCOP2B (2022-06-29)
A	SCOP2 Family	Tetrapyrrole methylase	8057810	4000056	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Tetrapyrrole methylase	8057811	3000017	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	TP_methylase	e2bb3B1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
B	TP_methylase	e2bb3B2	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
A	TP_methylase	e2bb3A3	A: a/b three-layered sandwiches	X: jelly-roll	H: AOC barrel-like	T: AOC barrel-like	F: TP_methylase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
B	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
A	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
A	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00590	Tetrapyrrole (Corrin/Porphyrin) Methylases (TP_methylase)	Tetrapyrrole (Corrin/Porphyrin) Methylases	This family uses S-AdoMet in the methylation of diverse substrates. This family includes a related group of bacterial proteins of unknown function, including Swiss:P45528. This family includes the methylase Dipthine synthase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	cobalamin biosynthesis precorrin-6Y methylase (cbiE)	catalytic activity, acting on a protein transferase activity, transferring one-carbon groups protein methyltransferase activity 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 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, B	IPR035996	Tetrapyrrole methylase superfamily	Homologous Superfamily
A, B	IPR014777	Tetrapyrrole methylase, subdomain 1	Homologous Superfamily
A, B	IPR014776	Tetrapyrrole methylase, subdomain 2	Homologous Superfamily
A, B	IPR000878	Tetrapyrrole methylase	Domain
A, B	IPR012818	Precorrin-6Y methyltransferase	Domain
A, B	IPR050714	Cobalamin biosynthesis methyltransferase	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.