{"metadata":{"accession":"PF01994","entry_id":null,"type":"family","go_terms":null,"source_database":"pfam","member_databases":null,"integrated":"IPR002845","hierarchy":null,"name":{"name":"tRNA ribose 2'-O-methyltransferase, aTrm56","short":"Trm56"},"description":[{"text":"<p>This family is an aTrm56 that catalyses the 2'-O-methylation of the cytidine residue in archaeal tRNA, using S-adenosyl-L-methionine. Biochemical assays showed that aTrm56 forms a dimer and prefers the L-shaped tRNA to the lambda form as its substrate [[cite:PUB00046137]] [[cite:PUB00046138]].  aTrm56 consists of the SPOUT domain, which contains the characteristic deep trefoil knot for AdoMet binding, and a unique C-terminal beta-hairpin [[cite:PUB00046136]].</p>","llm":false,"checked":false,"updated":false}],"wikipedia":null,"literature":{"PUB00046137":{"PMID":15987815,"ISBN":null,"volume":"11","issue":"7","year":2005,"title":"The Cm56 tRNA modification in archaea is catalyzed either by a specific 2'-O-methylase, or a C/D sRNP.","URL":null,"raw_pages":"1051-63","medline_journal":"RNA","ISO_journal":"RNA","authors":["Renalier MH","Joseph N","Gaspin C","Thebault P","Mougin A."],"DOI_URL":"http://dx.doi.org/10.1261/rna.2110805"},"PUB00046136":{"PMID":18068186,"ISBN":null,"volume":"375","issue":"4","year":2008,"title":"Crystal structure and mutational study of a unique SpoU family archaeal methylase that forms 2'-O-methylcytidine at position 56 of tRNA.","URL":null,"raw_pages":"1064-75","medline_journal":"J Mol Biol","ISO_journal":"J. Mol. Biol.","authors":["Kuratani M","Bessho Y","Nishimoto M","Grosjean H","Yokoyama S."],"DOI_URL":"http://dx.doi.org/10.1016/j.jmb.2007.11.023"},"PUB00046138":{"PMID":16164996,"ISBN":null,"volume":"87","issue":"9-10","year":2005,"title":"Two different mechanisms for tRNA ribose methylation in Archaea: a short survey.","URL":null,"raw_pages":"889-95","medline_journal":"Biochimie","ISO_journal":"Biochimie","authors":["Clouet-d'Orval B","Gaspin C","Mougin A."],"DOI_URL":"http://dx.doi.org/10.1016/j.biochi.2005.02.004"}},"set_info":{"accession":"CL0098","name":"SPOUT"},"overlaps_with":null,"counters":{"subfamilies":0,"domain_architectures":3,"interactions":0,"matches":595,"pathways":0,"proteins":591,"proteomes":581,"sets":1,"structural_models":{"alphafold":555},"structures":4,"taxa":1062},"entry_annotations":{"hmm":0,"logo":0,"alignment:seed":64,"alignment:full":296},"cross_references":{},"is_llm":false,"is_reviewed_llm":false,"is_updated_llm":false,"representative_structure":{"accession":"8x6k","name":"The X-ray structure of N-terminal catalytic domain of Thermoplasma acidophilum tRNA methyltransferase Trm56 (Ta0931)."}}}