{"id":"https://openalex.org/W2080195460","doi":"https://doi.org/10.1107/s1744309111026509","title":"Purification and crystallization ofBacillus subtilisNrnA, a novel enzyme involved in nanoRNA degradation","display_name":"Purification and crystallization ofBacillus subtilisNrnA, a novel enzyme involved in nanoRNA degradation","publication_year":2011,"publication_date":"2011-09-29","ids":{"openalex":"https://openalex.org/W2080195460","doi":"https://doi.org/10.1107/s1744309111026509","mag":"2080195460","pmid":"https://pubmed.ncbi.nlm.nih.gov/22102036","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/3212371"},"language":"en","primary_location":{"id":"doi:10.1107/s1744309111026509","doi":"https://doi.org/10.1107/s1744309111026509","is_oa":true,"landing_page_url":"https://doi.org/10.1107/s1744309111026509","pdf_url":"https://journals.iucr.org/f/issues/2011/10/00/us5034/us5034.pdf","source":{"id":"https://openalex.org/S4210231712","display_name":"Acta Crystallographica Section F Structural Biology and Crystallization Communications","issn_l":"1744-3091","issn":["1744-3091"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Acta Crystallographica Section F Structural Biology and Crystallization Communications","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://journals.iucr.org/f/issues/2011/10/00/us5034/us5034.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5080716120","display_name":"Claudiu M. Nelersa","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Claudiu M. Nelersa","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Miami Miller School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Miami Miller School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043997400","display_name":"Brad J. Schmier","orcid":"https://orcid.org/0000-0001-7985-8613","observed_orcids":["https://orcid.org/0000-0001-7985-8613"]},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brad J. Schmier","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Miami Miller School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Miami Miller School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077028241","display_name":"Arun Malhotra","orcid":"https://orcid.org/0000-0001-6656-7841","observed_orcids":["https://orcid.org/0000-0001-6656-7841"]},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Arun Malhotra","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Miami Miller School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Miami Miller School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA","institution_ids":["https://openalex.org/I145608581"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I145608581"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.15272243,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":94},"biblio":{"volume":"67","issue":"10","first_page":"1235","last_page":"1238"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9839000105857849,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9839000105857849,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.004900000058114529,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12827","display_name":"Biochemical and Molecular Research","score":0.0032999999821186066,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bacillus-subtilis","display_name":"Bacillus subtilis","score":0.9470000267028809},{"id":"https://openalex.org/keywords/exoribonuclease","display_name":"exoribonuclease","score":0.8090000152587891},{"id":"https://openalex.org/keywords/protein-purification","display_name":"protein purification","score":0.6430000066757202},{"id":"https://openalex.org/keywords/protein-crystallization","display_name":"protein crystallization","score":0.9620000123977661},{"id":"https://openalex.org/keywords/room-temperature-crystallization","display_name":"room-temperature crystallization","score":0.7129999995231628},{"id":"https://openalex.org/keywords/crystal-structure","display_name":"crystal structure","score":0.5019999742507935}],"concepts":[{"id":"https://openalex.org/C2777272437","wikidata":"https://www.wikidata.org/wiki/Q131238","display_name":"Bacillus subtilis","level":3,"score":0.8451417684555054},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.7059968709945679},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.5547741055488586},{"id":"https://openalex.org/C2775990537","wikidata":"https://www.wikidata.org/wiki/Q3062052","display_name":"Exoribonuclease","level":5,"score":0.530874490737915},{"id":"https://openalex.org/C54400483","wikidata":"https://www.wikidata.org/wiki/Q1793202","display_name":"PEG ratio","level":2,"score":0.5141261219978333},{"id":"https://openalex.org/C2779679103","wikidata":"https://www.wikidata.org/wiki/Q5251805","display_name":"Degradation (telecommunications)","level":2,"score":0.5101352334022522},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.47973671555519104},{"id":"https://openalex.org/C203036418","wikidata":"https://www.wikidata.org/wiki/Q284256","display_name":"Crystallization","level":2,"score":0.4385092854499817},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4361986517906189},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4284510612487793},{"id":"https://openalex.org/C40767141","wikidata":"https://www.wikidata.org/wiki/Q285697","display_name":"Recombinant DNA","level":3,"score":0.4163011312484741},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.40433794260025024},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3990585207939148},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1769505739212036},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13428962230682373},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.08531013131141663},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.0},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C10879258","wikidata":"https://www.wikidata.org/wiki/Q76826611","display_name":"RNase P","level":4,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000201","qualifier_name":"enzymology","is_major_topic":true},{"descriptor_ui":"D003460","descriptor_name":"Crystallization","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009708","descriptor_name":"Nucleotidases","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D009708","descriptor_name":"Nucleotidases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D018360","descriptor_name":"Crystallography, X-Ray","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1107/s1744309111026509","doi":"https://doi.org/10.1107/s1744309111026509","is_oa":true,"landing_page_url":"https://doi.org/10.1107/s1744309111026509","pdf_url":"https://journals.iucr.org/f/issues/2011/10/00/us5034/us5034.pdf","source":{"id":"https://openalex.org/S4210231712","display_name":"Acta Crystallographica Section F Structural Biology and Crystallization Communications","issn_l":"1744-3091","issn":["1744-3091"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Acta Crystallographica Section F Structural Biology and Crystallization Communications","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3212371","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3212371","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Acta Crystallogr Sect F Struct Biol Cryst Commun","raw_type":"Text"},{"id":"pmid:22102036","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22102036","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Acta crystallographica. Section F, Structural biology and crystallization communications","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1107/s1744309111026509","doi":"https://doi.org/10.1107/s1744309111026509","is_oa":true,"landing_page_url":"https://doi.org/10.1107/s1744309111026509","pdf_url":"https://journals.iucr.org/f/issues/2011/10/00/us5034/us5034.pdf","source":{"id":"https://openalex.org/S4210231712","display_name":"Acta Crystallographica Section F Structural Biology and Crystallization Communications","issn_l":"1744-3091","issn":["1744-3091"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Acta Crystallographica Section F Structural Biology and Crystallization Communications","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G102163711","display_name":null,"funder_award_id":"DE\u2010 AC02\u201006CH11357","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1141336364","display_name":"Structural studies of exoribonucleases","funder_award_id":"R01GM069972","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G2287611682","display_name":null,"funder_award_id":"AC02\u201006CH11357","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G262962599","display_name":null,"funder_award_id":"AC02\u201006CH11357","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3834503677","display_name":null,"funder_award_id":"RR 15301","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G498139845","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5106849484","display_name":null,"funder_award_id":"No. DE-AC02-06CH11357.","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5607048534","display_name":null,"funder_award_id":"DE-AC02\u201306CH11357","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5929214267","display_name":"An Undulator Resource for Structural Biology","funder_award_id":"P41RR015301","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G6848031779","display_name":null,"funder_award_id":"06CH11357","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6918803902","display_name":null,"funder_award_id":"06CH11357","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G7368700025","display_name":null,"funder_award_id":"No. DE-AC02-06CH11357","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7428348810","display_name":null,"funder_award_id":"RR-15301","funder_id":"https://openalex.org/F4320306230","funder_display_name":"American Heart Association"},{"id":"https://openalex.org/G7431513933","display_name":null,"funder_award_id":"RR-15301","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G9000221485","display_name":null,"funder_award_id":"RR15301","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G993149817","display_name":null,"funder_award_id":"DE-AC02-06CH11357 ","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320306230","display_name":"American Heart Association","ror":"https://ror.org/013kjyp64"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337375","display_name":"National Center for Research Resources","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2080195460.pdf","grobid_xml":"https://content.openalex.org/works/W2080195460.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W29299647","https://openalex.org/W1539796472","https://openalex.org/W1726597626","https://openalex.org/W1842766745","https://openalex.org/W1964969133","https://openalex.org/W2018917669","https://openalex.org/W2035628814","https://openalex.org/W2038403942","https://openalex.org/W2051320113","https://openalex.org/W2054572399","https://openalex.org/W2063335878","https://openalex.org/W2106246537","https://openalex.org/W2150859192","https://openalex.org/W2159129933","https://openalex.org/W4210623056"],"related_works":["https://openalex.org/W2558111345","https://openalex.org/W2159129933","https://openalex.org/W7095118617","https://openalex.org/W2752079026","https://openalex.org/W1947807925","https://openalex.org/W4310937871","https://openalex.org/W2142182847","https://openalex.org/W4386305493","https://openalex.org/W1998702684","https://openalex.org/W1776948372"],"abstract_inverted_index":{"The":[0,100],"final":[1],"step":[2,25],"in":[3,16,65],"RNA":[4,10],"degradation":[5,64],"is":[6,26,36],"the":[7,59,85,104],"hydrolysis":[8],"of":[9,58,72],"fragments":[11],"five":[12],"nucleotides":[13],"or":[14,94],"less":[15],"length":[17],"(nanoRNA)":[18],"to":[19,103],"mononucleotides.":[20],"In":[21],"Escherichia":[22],"coli":[23],"this":[24],"carried":[27],"out":[28],"by":[29],"oligoribonuclease":[30],"(Orn),":[31],"a":[32,113],"DEDD-family":[33],"exoribonuclease":[34],"that":[35],"conserved":[37],"throughout":[38],"eukaryotes.":[39],"However,":[40],"many":[41],"bacteria":[42],"lack":[43],"Orn":[44],"homologs,":[45],"and":[46,79],"an":[47],"unrelated":[48],"DHH-family":[49],"phosphoesterase,":[50],"NrnA,":[51],"has":[52],"recently":[53],"been":[54],"identified":[55],"as":[56,98],"one":[57],"enzymes":[60],"responsible":[61],"for":[62],"nanoRNA":[63],"Bacillus":[66],"subtilis.":[67],"To":[68],"understand":[69],"its":[70],"mechanism":[71],"action,":[73],"B.":[74],"subtilis":[75],"NrnA":[76],"was":[77],"purified":[78],"crystallized":[80],"at":[81],"room":[82],"temperature":[83],"using":[84],"hanging-drop":[86],"vapor-diffusion":[87],"method":[88],"with":[89,110],"PEG":[90,92,95],"4000,":[91],"3350":[93],"MME":[96],"2000":[97],"precipitant.":[99],"crystals":[101],"belonged":[102],"primitive":[105],"monoclinic":[106],"space":[107],"group":[108],"P2(1),":[109],"unit-cell":[111],"parameters":[112],"=":[114,117,120,124,127,130],"50.62,":[115],"b":[116],"121.3,":[118],"c":[119],"123.4":[121],"\u00c5,":[122],"\u03b1":[123],"90,":[125],"\u03b2":[126],"91.31,":[128],"\u03b3":[129],"90\u00b0.":[131]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2026-11-01T11:40:01.658920","created_date":"2016-06-24T00:00:00"}
