3VSE

Crystal structure of methyltransferase

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	hypothetical RNA methyltransferase	8096235	4003167	SCOP2 (2022-06-29)
A	SCOP2 Family	Hypothetical RNA methyltransferase domain (HRMD)	8101081	4002230	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8096236	3000118	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PUA domain-like	8101082	3001015	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8096236	3000118	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PUA domain-like	8101082	3001015	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PUA domain-like	8101082	3001015	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8096236	3000118	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PUA domain-like	8101082	3001015	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8096236	3000118	SCOP2B (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	PUA_1	e3vseA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: PUA_1	ECOD (1.6)
A	Methyltransf_11_2	e3vseA2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_2	ECOD (1.6)
B	PUA_1	e3vseB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: PUA_1	ECOD (1.6)
B	Methyltransf_11_2	e3vseB2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_2	ECOD (1.6)
C	PUA_1	e3vseC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: PUA_1	ECOD (1.6)
C	Methyltransf_11_2	e3vseC2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_2	ECOD (1.6)
D	PUA_1	e3vseD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: PUA_1	ECOD (1.6)
D	Methyltransf_11_2	e3vseD2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.130.10	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
A	3.30.750.80	Alpha Beta	2-Layer Sandwich	Transcription Regulator spoIIAA	RNA methyltransferase domain (HRMD) like	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)
B	2.30.130.10	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
B	3.30.750.80	Alpha Beta	2-Layer Sandwich	Transcription Regulator spoIIAA	RNA methyltransferase domain (HRMD) like	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)
C	2.30.130.10	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
C	3.30.750.80	Alpha Beta	2-Layer Sandwich	Transcription Regulator spoIIAA	RNA methyltransferase domain (HRMD) like	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)
D	2.30.130.10	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
D	3.30.750.80	Alpha Beta	2-Layer Sandwich	Transcription Regulator spoIIAA	RNA methyltransferase domain (HRMD) like	CATH (4.3.0)
D	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	PF10672	S-adenosylmethionine-dependent methyltransferase (Methyltrans_SAM)	S-adenosylmethionine-dependent methyltransferase	-	Family
A, B, C, D	PF17785	PUA-like domain (PUA_3)	PUA-like domain	This PUA-like domain is found at the N-terminus of SAM-dependent methyltransferases [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Putative uncharacterized protein	transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding	methylation metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR015947	PUA-like superfamily	Homologous Superfamily
A, B, C, D	IPR019614	S-adenosylmethionine-dependent methyltransferase	Domain
A, B, C, D	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B, C, D	IPR036974	PUA domain superfamily	Homologous Superfamily
A, B, C, D	IPR041532	RlmI-like, PUA domain	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.