1VBF | pdb_00001vbf

Crystal structure of protein L-isoaspartate O-methyltransferase homologue from Sulfolobus tokodaii

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)
D	d1vbfd_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	Protein-L-isoaspartyl O-methyltransferase	Protein-L-isoaspartyl O-methyltransferase	(Sulfurisphaera tokodaii ) [TaxId: 111955 ],	SCOPe (2.08)
C	d1vbfc_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	Protein-L-isoaspartyl O-methyltransferase	Protein-L-isoaspartyl O-methyltransferase	(Sulfurisphaera tokodaii ) [TaxId: 111955 ],	SCOPe (2.08)
B	d1vbfb_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	Protein-L-isoaspartyl O-methyltransferase	Protein-L-isoaspartyl O-methyltransferase	(Sulfurisphaera tokodaii ) [TaxId: 111955 ],	SCOPe (2.08)
A	d1vbfa_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	Protein-L-isoaspartyl O-methyltransferase	Protein-L-isoaspartyl O-methyltransferase	(Sulfurisphaera tokodaii ) [TaxId: 111955 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041247	3000118	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041247	3000118	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041247	3000118	SCOP2B (2022-06-29)
A	SCOP2 Family	Protein-L-isoaspartyl O-methyltransferase	8028868	4000666	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041247	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)
D	CMAS, Methyltransf_25	e1vbfD1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: CMAS, Methyltransf_25	ECOD (develop294)
C	CMAS, Methyltransf_25	e1vbfC1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: CMAS, Methyltransf_25	ECOD (develop294)
B	CMAS, Methyltransf_25	e1vbfB1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: CMAS, Methyltransf_25	ECOD (develop294)
A	RrnaAD, PCMT	e1vbfA1	A: alpha bundles	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: RrnaAD, PCMT	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
C	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
B	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	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, C, D	PF01135	Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT) (PCMT)	Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	231aa long hypothetical protein-L-isoaspartate O-methyltransferase	O-methyltransferase activity catalytic activity, acting on a protein protein-L-isoaspartate (D-aspartate) O-methyltransferase activity transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity carboxyl-O-methyltransferase activity protein carboxyl O-methyltransferase activity protein methyltransferase activity methyltransferase activity catalytic activity	methylation metabolic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000682	Protein-L-isoaspartate(D-aspartate) O-methyltransferase	Family
A, B, C, D	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily

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.