2EG5 | pdb_00002eg5

The structure of xanthosine methyltransferase

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)
C [auth E]	d2eg5e_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	automated matches	automated matches	(Coffea canephora ) [TaxId: 49390 ],	SCOPe (2.08)
D [auth G]	d2eg5g_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	automated matches	automated matches	(Coffea canephora ) [TaxId: 49390 ],	SCOPe (2.08)
B [auth C]	d2eg5c_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	automated matches	automated matches	(Coffea canephora ) [TaxId: 49390 ],	SCOPe (2.08)
A	d2eg5a_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	automated matches	automated matches	(Coffea canephora ) [TaxId: 49390 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth E]	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8089194	3000118	SCOP2B (2022-06-29)
D [auth G]	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8089194	3000118	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8089194	3000118	SCOP2B (2022-06-29)
A	SCOP2 Family	Salicylic acid carboxyl methyltransferase (SAMT)-like	8089193	4001150	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8089194	3000118	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)
C [auth E]	Biopterin_H	e2eg5E1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: Biopterin_H	ECOD (develop294)
D [auth G]	Biopterin_H	e2eg5G1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: Biopterin_H	ECOD (develop294)
B [auth C]	Biopterin_H	e2eg5C1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: Biopterin_H	ECOD (develop294)
A	GHMP_kinases_N	e2eg5A1	A: alpha bundles	X: Profilin-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GHMP_kinases_N	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth E]	1.10.1200.270	Mainly Alpha	Orthogonal Bundle	Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein	Chain A	CATH (4.3.0)
C [auth E]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
D [auth G]	1.10.1200.270	Mainly Alpha	Orthogonal Bundle	Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein	Chain A	CATH (4.3.0)
D [auth G]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
B [auth C]	1.10.1200.270	Mainly Alpha	Orthogonal Bundle	Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein	Chain A	CATH (4.3.0)
B [auth C]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
A	1.10.1200.270	Mainly Alpha	Orthogonal Bundle	Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein	Chain A	CATH (4.3.0)
A	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth E], D [auth G]	PF03492	SAM dependent carboxyl methyltransferase (Methyltransf_7)	SAM dependent carboxyl methyltransferase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth E], D [auth G]	Xanthosine methyltransferase	transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	methylation metabolic process cellular process alkaloid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth E], D [auth G]	IPR042086	Methyltransferase, alpha-helical capping domain	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR005299	SAM dependent carboxyl 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.