{"metadata":{"accession":"PF02130","entry_id":null,"type":"domain","go_terms":null,"source_database":"pfam","member_databases":null,"integrated":"IPR002036","hierarchy":null,"name":{"name":"Endoribonuclease YbeY","short":"YbeY"},"description":[{"text":"<p>YbeY is a single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. It acts together with the RNase R to eliminate defective 70S ribosomes, but not properly maturated 70S ribosomes or individual subunits, by a process mediated specifically by the 30S ribosomal subunit. It is involved in the processing of 16S, 23S and 5S rRNAs, with a particularly strong effect on maturation at both the 5'-and 3'-ends of 16S rRNA as well as maturation of the 5'-end of 23S and 5S rRNAs [[cite:PUB00064743],[cite:PUB00064742],[cite:PUB00096939]]. The crystal structure of the protein from Aquifex aeolicus showed an overall fold consisting of one central alpha-helix surrounded by a four-stranded beta-sheet and four other alpha-helices [[cite:PUB00027806]].</p>","llm":false,"checked":false,"updated":false}],"wikipedia":null,"literature":{"PUB00027806":{"PMID":12832766,"ISBN":null,"volume":"59","issue":"Pt 7","year":2003,"title":"Structure of the hypothetical protein AQ_1354 from Aquifex aeolicus.","URL":null,"raw_pages":"1219-23","medline_journal":"Acta Crystallogr D Biol Crystallogr","ISO_journal":"Acta Crystallogr. D Biol. Crystallogr.","authors":["Oganesyan V","Busso D","Brandsen J","Chen S","Jancarik J","Kim R","Kim SH."],"DOI_URL":"http://dx.doi.org/10.1107/S0907444903011028"},"PUB00045164":{"PMID":15965736,"ISBN":null,"volume":"6","issue":"1","year":2005,"title":"NMR solution structure of Thermotoga maritima protein TM1509 reveals a Zn-metalloprotease-like tertiary structure.","URL":null,"raw_pages":"51-62","medline_journal":"J Struct Funct Genomics","ISO_journal":"J. Struct. Funct. Genomics","authors":["Penhoat CH","Li Z","Atreya HS","Kim S","Yee A","Xiao R","Murray D","Arrowsmith CH","Szyperski T."],"DOI_URL":"http://dx.doi.org/10.1007/s10969-005-5277-z"},"PUB00064743":{"PMID":23273979,"ISBN":null,"volume":"49","issue":"3","year":2013,"title":"Conserved Bacterial RNase YbeY Plays Key Roles in 70S Ribosome Quality Control and 16S rRNA Maturation.","URL":null,"raw_pages":"427-38","medline_journal":"Mol Cell","ISO_journal":"Mol. Cell","authors":["Jacob AI","Kohrer C","Davies BW","Rajbhandary UL","Walker GC."],"DOI_URL":"http://dx.doi.org/10.1016/j.molcel.2012.11.025"},"PUB00096939":{"PMID":32605982,"ISBN":null,"volume":"11","issue":"3","year":2020,"title":"Endoribonuclease YbeY Is Essential for RNA Processing and Virulence in Pseudomonas aeruginosa.","URL":null,"raw_pages":null,"medline_journal":"mBio","ISO_journal":"mBio","authors":["Xia Y","Weng Y","Xu C","Wang D","Pan X","Tian Z","Xia B","Li H","Chen R","Liu C","Jin Y","Bai F","Cheng Z","Kuipers OP","Wu W."],"DOI_URL":null},"PUB00064742":{"PMID":20807199,"ISBN":null,"volume":"78","issue":"2","year":2010,"title":"Role of Escherichia coli YbeY, a highly conserved protein, in rRNA processing.","URL":null,"raw_pages":"506-18","medline_journal":"Mol Microbiol","ISO_journal":"Mol. Microbiol.","authors":["Davies BW","Kohrer C","Jacob AI","Simmons LA","Zhu J","Aleman LM","Rajbhandary UL","Walker GC."],"DOI_URL":"http://dx.doi.org/10.1111/j.1365-2958.2010.07351.x"}},"set_info":{"accession":"CL0126","name":"Peptidase_MA"},"overlaps_with":null,"counters":{"subfamilies":0,"domain_architectures":53,"interactions":0,"matches":20283,"pathways":0,"proteins":20178,"proteomes":19123,"sets":1,"structural_models":{"alphafold":13642},"structures":5,"taxa":29306},"entry_annotations":{"hmm":0,"logo":0,"alignment:seed":132,"alignment:full":10770},"cross_references":{},"is_llm":false,"is_reviewed_llm":false,"is_updated_llm":false,"representative_structure":{"accession":"7y7o","name":"Crystal structure of metallo-endoribonuclease YbeY from Staphylococcus aureus"}}}