3M6U

Multi-site-specific 16S rRNA methyltransferase RsmF from Thermus thermophilus in space group 43

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	F_UNCLASSIFIED	e3m6uA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF17126	e3m6uA3	A: a+b two layers	X: Cystatin-like	H: Pre-PUA domain (From Topology)	T: Pre-PUA domain	F: PF17126	ECOD (1.6)
A	PF01189,PF17125	e3m6uA1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF01189,PF17125	ECOD (1.6)
B	F_UNCLASSIFIED	e3m6uB3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: PUA domain	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF17126	e3m6uB2	A: a+b two layers	X: Cystatin-like	H: Pre-PUA domain (From Topology)	T: Pre-PUA domain	F: PF17126	ECOD (1.6)
B	PF01189,PF17125	e3m6uB1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF01189,PF17125	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	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)
A	2.30.130.60	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
B	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	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)
B	2.30.130.60	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF17126	RsmF rRNA methyltransferase first C-terminal domain (RsmF_methylt_CI)	RsmF rRNA methyltransferase first C-terminal domain	This is the first of two distinct C-terminal domains of the 16S rRNA methyltransferase RsmF. It is necessary for stabilising the catalytic core, Pfam:PF01189.	Domain
A, B	PF17125	N-terminal domain of 16S rRNA methyltransferase RsmF (Methyltr_RsmF_N)	N-terminal domain of 16S rRNA methyltransferase RsmF	This is the N-terminal domain of the RsmF methyl transferase. RsmF is a multi-site-specific methyltransferase that is responsible for the synthesis of three modifications on cytidines in 16S ribosomal RNA. The N-terminus is critical for stabilising t ...	This is the N-terminal domain of the RsmF methyl transferase. RsmF is a multi-site-specific methyltransferase that is responsible for the synthesis of three modifications on cytidines in 16S ribosomal RNA. The N-terminus is critical for stabilising the catalytic core of the enzyme [1].	Domain
A, B	PF01189	16S rRNA methyltransferase RsmB/F (Methyltr_RsmB-F)	16S rRNA methyltransferase RsmB/F	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	rRNA methylase	RNA methyltransferase activity catalytic activity, acting on RNA transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity methyltransferase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding	RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule methylation nucleobase-containing compound metabolic process organic cyclic compound metabolic process RNA modification organic substance metabolic process methylation macromolecule modification metabolic process macromolecule metabolic process RNA methylation ribonucleoprotein complex biogenesis RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule methylation nucleobase-containing compound metabolic process organic cyclic compound metabolic process RNA modification organic substance metabolic process methylation macromolecule modification metabolic process macromolecule metabolic process RNA methylation ribonucleoprotein complex biogenesis cellular biosynthetic process rRNA processing cellular component biogenesis ribosome biogenesis organic substance biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process cellular metabolic process gene expression macromolecule biosynthetic process biosynthetic process ncRNA metabolic process nucleic acid catabolic process cellular process	intracellular anatomical structure cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR031341	Ribosomal RNA small subunit methyltransferase F, N-terminal	Domain
A, B	IPR001678	SAM-dependent methyltransferase RsmB-F/NOP2-type domain	Domain
A, B	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B	IPR049560	SAM-dependent methyltransferase RsmB-F/NOP2-type, catalytic core	Domain
A, B	IPR023267	RNA (C5-cytosine) methyltransferase	Family
A, B	IPR031340	Ribosomal RNA small subunit methyltransferase F, first C-terminal domain	Domain
A, B	IPR048151	Ribosomal RNA small subunit methyltransferase F	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.