8Z62 | pdb_00008z62

Crystal structure of rRNA (uracil-C5)-methyltransferase from Pyrococcus horikoshii OT3

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05958	tRNA (Uracil-5-)-methyltransferase (tRNA_U5-meth_tr)	tRNA (Uracil-5-)-methyltransferase	-	Family
A, B	PF21579	tRNA (uracil(54)-C(5))-methyltransferase, TRAM domain (PabTrmU54_TRAM_dom)	tRNA (uracil(54)-C(5))-methyltransferase, TRAM domain	This domain is found at the N-terminal end of tRNA (uracil(54)-C(5))- methyltransferase from Pyrococcus abyssi (PabTrmU54), which catalyses the formation of 5-methyl-uridine at position 54 (m5U54) in tRNA. This domain, a TRAM domain, adopts a five-st ...	This domain is found at the N-terminal end of tRNA (uracil(54)-C(5))- methyltransferase from Pyrococcus abyssi (PabTrmU54), which catalyses the formation of 5-methyl-uridine at position 54 (m5U54) in tRNA. This domain, a TRAM domain, adopts a five-stranded beta barrel architecture characteristic of an oligosaccharide/ oligonucleotide-binding fold (OB-fold) [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	23S rRNA (uracil(747)-C(5))-methyltransferase	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding RNA 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 C-methyltransferase activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding RNA 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 C-methyltransferase activity rRNA (uridine-C5-)-methyltransferase activity rRNA (uridine) methyltransferase activity methyltransferase activity catalytic activity cation binding ion binding metal ion binding	ribonucleoprotein complex biogenesis rRNA methylation RNA metabolic process rRNA processing rRNA modification nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process primary metabolic process ribonucleoprotein complex biogenesis rRNA methylation RNA metabolic process rRNA processing rRNA modification nucleobase-containing compound metabolic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process macromolecule methylation RNA modification biosynthetic process methylation macromolecule modification metabolic process cellular process macromolecule metabolic process RNA methylation	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR010280	(Uracil-5)-methyltransferase family	Family
A, B	IPR048845	tRNA (uracil(54)-C(5))/23S rRNA (uracil(747)-C(5))-methyltransferase, TRAM domain	Domain
A, B	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B	IPR030391	RNA methyltransferase TrmA, conserved site	Conserved Site
A, B	IPR012340	Nucleic acid-binding, OB-fold	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.