3GYQ | pdb_00003gyq

Structure of the Thiostrepton-Resistance Methyltransferase S-adenosyl-L-methionine Complex

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)
B	SCOP2 Family	RNA 2'-O ribose methyltransferase substrate binding domain	8046338	4002711	SCOP2 (2022-06-29)
B	SCOP2 Family	SpoU-like RNA 2'-O ribose methyltransferase	8095891	4002340	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	L30e-like	8095890	3001739	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	alpha/beta knot	8095892	3001122	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	L30e-like	8095890	3001739	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	alpha/beta knot	8095892	3001122	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)
B	TSNR_N	e3gyqB3	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: TSNR_N	ECOD (1.6)
B	SpoU_methylase	e3gyqB4	A: a/b three-layered sandwiches	X: alpha/beta knot (From Topology)	H: alpha/beta knot (From Topology)	T: alpha/beta knot	F: SpoU_methylase	ECOD (1.6)
A	TSNR_N	e3gyqA1	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: TSNR_N	ECOD (1.6)
A	SpoU_methylase	e3gyqA2	A: a/b three-layered sandwiches	X: alpha/beta knot (From Topology)	H: alpha/beta knot (From Topology)	T: alpha/beta knot	F: SpoU_methylase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.1330.30	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
B	3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	SPOUT methyltransferase, trefoil knot domain	CATH (4.3.0)
A	3.30.1330.30	Alpha Beta	2-Layer Sandwich	60s Ribosomal Protein L30	Chain: A	CATH (4.3.0)
A	3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	SPOUT methyltransferase, trefoil knot domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00588	SpoU rRNA Methylase family (SpoU_methylase)	SpoU rRNA Methylase family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	rRNA (adenosine-2'-O-)-methyltransferase	RNA methyltransferase activity O-methyltransferase activity rRNA methyltransferase activity catalytic activity, acting on RNA transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity catalytic activity, acting on a rRNA S-adenosylmethionine-dependent methyltransferase activity 23S rRNA (adenosine(1067)-2'-O)-methyltransferase activity methyltransferase activity rRNA (adenine) methyltransferase activity catalytic activity RNA 2'-O-methyltransferase activity RNA methyltransferase activity O-methyltransferase activity rRNA methyltransferase activity catalytic activity, acting on RNA transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity catalytic activity, acting on a rRNA S-adenosylmethionine-dependent methyltransferase activity 23S rRNA (adenosine(1067)-2'-O)-methyltransferase activity methyltransferase activity rRNA (adenine) methyltransferase activity catalytic activity RNA 2'-O-methyltransferase activity RNA binding binding nucleic acid binding	response to stimulus response to chemical response to antibiotic	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001537	tRNA/rRNA methyltransferase, SpoU type	Domain
A, B	IPR029026	tRNA (guanine-N1-)-methyltransferase, N-terminal	Homologous Superfamily
A, B	IPR051259	Ribosomal RNA Methyltransferase	Family
A, B	IPR029028	Alpha/beta knot methyltransferases	Homologous Superfamily
A, B	IPR006795	Thiostrepton-resistance methylase, N-terminal	Domain
A, B	IPR029064	Ribosomal protein eL30-like 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.