{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,9]],"date-time":"2026-03-09T11:09:42Z","timestamp":1773054582116,"version":"3.50.1"},"reference-count":40,"publisher":"International Union of Crystallography (IUCr)","issue":"11","license":[{"start":{"date-parts":[[2018,10,16]],"date-time":"2018-10-16T00:00:00Z","timestamp":1539648000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/journals.iucr.org\/services\/copyrightpolicy.html"},{"start":{"date-parts":[[2018,10,16]],"date-time":"2018-10-16T00:00:00Z","timestamp":1539648000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/journals.iucr.org\/services\/copyrightpolicy.html#TDM"}],"funder":[{"DOI":"10.13039\/501100001691","name":"Japan Society for the Promotion of Science","doi-asserted-by":"publisher","award":["18H02386"],"award-info":[{"award-number":["18H02386"]}],"id":[{"id":"10.13039\/501100001691","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001700","name":"Ministry of Education, Culture, Sports, Science and Technology","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001700","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100009619","name":"Japan Agency for Medical Research and Development","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100009619","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["iucr.org","wiley.com","iucrj.org"],"crossmark-restriction":true},"short-container-title":["Acta Crystallogr F Struct Biol Commun","Acta Crystallogr F","Acta Crystallogr F Struct Biol Cryst Commun","Acta Cryst F","Acta Cryst F Struct Biol Commun","Acta Cryst Sect F","Acta Cryst Sect F Struct Biol Commun","Acta Crystallogr Sect F","Acta Crystallogr Sect F Struct Biol Commun","Acta Crystallogr Sect F Struct Biol Cryst Commun"],"published-print":{"date-parts":[[2018,11,1]]},"abstract":"<jats:p>\n                  <jats:italic>Burkholderia cenocepacia<\/jats:italic> is an opportunistic pathogen that infects cystic fibrosis patients, causing pneumonia and septicemia. <jats:italic>B. cenocepacia<\/jats:italic> has intrinsic antibiotic resistance against monobactams, aminoglycosides, chloramphenicol and fluoroquinolones that is contributed by a homologue of BpeB, which is a member of the resistance-nodulation-cell division (RND)-type multidrug-efflux transporters. Here, the cloning, overexpression, purification, construct design for crystallization and preliminary X-ray diffraction analysis of this BpeB homologue from <jats:italic>B. cenocepacia<\/jats:italic> are reported. Two truncation variants were designed to remove possible disordered regions based on comparative sequence and structural analysis to salvage the wild-type protein, which failed to crystallize. The 17-residue carboxyl-terminal truncation yielded crystals that diffracted to 3.6\u2005\u00c5 resolution. The efflux function measured using minimal inhibitory concentration assays indicated that the truncation decreased, but did not eliminate, the efflux activity of the transporter.<\/jats:p>","DOI":"10.1107\/s2053230x18013547","type":"journal-article","created":{"date-parts":[[2018,10,16]],"date-time":"2018-10-16T13:39:43Z","timestamp":1539697183000},"page":"710-716","update-policy":"https:\/\/doi.org\/10.1107\/cm_01","source":"Crossref","is-referenced-by-count":2,"title":["BpeB, a major resistance-nodulation-cell division transporter from <i>Burkholderia cenocepacia<\/i>: construct design, crystallization and preliminary structural analysis"],"prefix":"10.1107","volume":"74","author":[{"given":"Tomonari","family":"Horikawa","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6690-8458","authenticated-orcid":true,"given":"Li-Wei","family":"Hung","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4359-8423","authenticated-orcid":true,"given":"Heung-Bok","family":"Kim","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"David","family":"Shaya","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9353-5909","authenticated-orcid":true,"given":"Chang-Yub","family":"Kim","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6384-0320","authenticated-orcid":true,"given":"Thomas C.","family":"Terwilliger","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4278-0039","authenticated-orcid":true,"given":"Eiki","family":"Yamashita","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maho","family":"Aoki","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7633-9308","authenticated-orcid":true,"given":"Ui","family":"Okada","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5553-7663","authenticated-orcid":true,"given":"Satoshi","family":"Murakami","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"329","published-online":{"date-parts":[[2018,10,16]]},"reference":[{"key":"tb5130_bb1","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1107\/S0907444909052925","volume":"66","author":"Adams","year":"2010","journal-title":"Acta Cryst. D"},{"key":"tb5130_bb2","doi-asserted-by":"crossref","first-page":"352","DOI":"10.1107\/S0907444912001308","volume":"68","author":"Afonine","year":"2012","journal-title":"Acta Cryst. D"},{"key":"tb5130_bb4","doi-asserted-by":"crossref","first-page":"e97903","DOI":"10.1371\/journal.pone.0097903","volume":"9","author":"Bolla","year":"2014","journal-title":"PLoS One"},{"key":"tb5130_bb5","doi-asserted-by":"crossref","first-page":"303","DOI":"10.1107\/S0907444910051218","volume":"67","author":"Bunk\u00f3czi","year":"2011","journal-title":"Acta Cryst. D"},{"key":"tb5130_bb7","doi-asserted-by":"crossref","unstructured":"Buroni, S., Pasca, M. R., Flannagan, R. S., Bazzini, S., Milano, A., Bertani, I., Venturi, V., Valvano, M. A. & Riccardi, G. (2009). BMC Microbiol. 9, 200.","DOI":"10.1186\/1471-2180-9-200"},{"key":"tb5130_bb8","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1007\/s10969-007-9017-4","volume":"7","author":"Bursey","year":"2006","journal-title":"J. Struct. Funct. Genomics"},{"key":"tb5130_bb9","doi-asserted-by":"crossref","first-page":"108","DOI":"10.1016\/S1047-8477(03)00043-1","volume":"142","author":"Caffrey","year":"2003","journal-title":"J. Struct. Biol."},{"key":"tb5130_bb11","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1073\/pnas.35.1.1","volume":"35","author":"Davis","year":"1949","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"tb5130_bb70","doi-asserted-by":"crossref","first-page":"5687","DOI":"10.1073\/pnas.1114944109","volume":"109","author":"Eicher","year":"2012","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"tb5130_bb12","doi-asserted-by":"crossref","first-page":"5803","DOI":"10.1128\/jb.178.19.5803-5805.1996","volume":"178","author":"Fralick","year":"1996","journal-title":"J. Bacteriol."},{"key":"tb5130_bb13","doi-asserted-by":"crossref","first-page":"806","DOI":"10.1016\/S0022-3476(86)80749-1","volume":"108","author":"Goldmann","year":"1986","journal-title":"J. Pediatr."},{"key":"tb5130_bb14","doi-asserted-by":"crossref","unstructured":"Guglierame, P., Pasca, M. R., De Rossi, E., Buroni, S., Arrigo, P., Manina, G. & Riccardi, G. (2006). BMC Microbiol. 6, 66.","DOI":"10.1186\/1471-2180-6-66"},{"key":"tb5130_bb15","doi-asserted-by":"crossref","first-page":"611","DOI":"10.1099\/13500872-141-3-611","volume":"141","author":"Hagman","year":"1995","journal-title":"Microbiology"},{"key":"tb5130_bb16","doi-asserted-by":"crossref","first-page":"206","DOI":"10.1016\/S0022-3476(84)80993-2","volume":"104","author":"Isles","year":"1984","journal-title":"J. Pediatr."},{"key":"tb5130_bb18","doi-asserted-by":"crossref","first-page":"2947","DOI":"10.1093\/bioinformatics\/btm404","volume":"23","author":"Larkin","year":"2007","journal-title":"Bioinformatics"},{"key":"tb5130_bb19","doi-asserted-by":"crossref","first-page":"533","DOI":"10.1099\/0022-1317-51-7-533","volume":"51","author":"Mahenthiralingam","year":"2002","journal-title":"J. Med. Microbiol."},{"key":"tb5130_bb20","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1038\/nrmicro1085","volume":"3","author":"Mahenthiralingam","year":"2005","journal-title":"Nature Rev. Microbiol."},{"key":"tb5130_bb22","doi-asserted-by":"crossref","first-page":"658","DOI":"10.1107\/S0021889807021206","volume":"40","author":"McCoy","year":"2007","journal-title":"J. Appl. Cryst."},{"key":"tb5130_bb23","doi-asserted-by":"crossref","first-page":"3113","DOI":"10.1128\/AAC.01803-09","volume":"54","author":"Mima","year":"2010","journal-title":"Antimicrob. Agents Chemother."},{"key":"tb5130_bb25","doi-asserted-by":"crossref","first-page":"587","DOI":"10.1038\/nature01050","volume":"419","author":"Murakami","year":"2002","journal-title":"Nature (London)"},{"key":"tb5130_bb26","doi-asserted-by":"crossref","first-page":"1064","DOI":"10.1126\/science.257.5073.1064","volume":"257","author":"Neu","year":"1992","journal-title":"Science"},{"key":"tb5130_bb27","doi-asserted-by":"crossref","first-page":"481","DOI":"10.1016\/S0966-842X(00)01864-3","volume":"8","author":"Nikaido","year":"2000","journal-title":"Trends Microbiol."},{"key":"tb5130_bb29","doi-asserted-by":"crossref","first-page":"265","DOI":"10.1093\/jac\/dkf137","volume":"50","author":"Nzula","year":"2002","journal-title":"J. Antimicrob. Chemother."},{"key":"tb5130_bb30","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1016\/S0076-6879(97)76066-X","volume":"276","author":"Otwinowski","year":"1997","journal-title":"Methods Enzymol."},{"key":"tb5130_bb31","doi-asserted-by":"crossref","first-page":"18484","DOI":"10.1073\/pnas.1318705110","volume":"110","author":"Pak","year":"2013","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"tb5130_bb32","doi-asserted-by":"crossref","first-page":"e104","DOI":"10.1093\/nar\/gni102","volume":"33","author":"Poussu","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"tb5130_bb34","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1016\/j.jsb.2008.12.007","volume":"166","author":"Psakis","year":"2009","journal-title":"J. Struct. Biol."},{"key":"tb5130_bb35","doi-asserted-by":"crossref","first-page":"8075","DOI":"10.1038\/s41598-017-08747-8","volume":"7","author":"Ramaswamy","year":"2017","journal-title":"Sci. Rep."},{"key":"tb5130_bb36","doi-asserted-by":"crossref","first-page":"W320","DOI":"10.1093\/nar\/gku316","volume":"42","author":"Robert","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"tb5130_bb37","doi-asserted-by":"crossref","first-page":"3079","DOI":"10.2174\/15680266113136660220","volume":"13","author":"Ruggerone","year":"2013","journal-title":"Curr. Top. Med. Chem."},{"key":"tb5130_bb38","doi-asserted-by":"crossref","first-page":"134","DOI":"10.1016\/j.jmb.2009.04.001","volume":"389","author":"Sennhauser","year":"2009","journal-title":"J. Mol. Biol."},{"key":"tb5130_bb39","doi-asserted-by":"crossref","first-page":"558","DOI":"10.1038\/nature09743","volume":"470","author":"Su","year":"2011","journal-title":"Nature (London)"},{"key":"tb5130_bb40","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1038\/s41467-017-00217-z","volume":"8","author":"Su","year":"2017","journal-title":"Nature Commun."},{"key":"tb5130_bb41","doi-asserted-by":"crossref","first-page":"9051","DOI":"10.1073\/pnas.0902400106","volume":"106","author":"Tal","year":"2009","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"tb5130_bb42","first-page":"107","volume":"1","author":"Tseng","year":"1999","journal-title":"J. Mol. Microbiol. Biotechnol."},{"key":"tb5130_bb43","doi-asserted-by":"crossref","first-page":"230","DOI":"10.1080\/0889311X.2013.835806","volume":"19","author":"Urzhumtsev","year":"2013","journal-title":"Crystallogr. Rev."},{"key":"tb5130_bb44","doi-asserted-by":"crossref","first-page":"880","DOI":"10.1107\/S1744309108028248","volume":"64","author":"Veesler","year":"2008","journal-title":"Acta Cryst. F"},{"key":"tb5130_bb45","doi-asserted-by":"crossref","first-page":"2138","DOI":"10.1093\/bioinformatics\/bth195","volume":"20","author":"Ward","year":"2004","journal-title":"Bioinformatics"},{"key":"tb5130_bb46","doi-asserted-by":"crossref","first-page":"1715","DOI":"10.1016\/S0140-6736(03)13374-0","volume":"361","author":"White","year":"2003","journal-title":"Lancet"},{"key":"tb5130_bb47","doi-asserted-by":"crossref","first-page":"4264","DOI":"10.1128\/JB.182.15.4264-4267.2000","volume":"182","author":"Zgurskaya","year":"2000","journal-title":"J. Bacteriol."}],"container-title":["Acta Crystallographica Section F Structural Biology Communications"],"original-title":[],"link":[{"URL":"http:\/\/journals.iucr.org\/f\/issues\/2018\/11\/00\/tb5130\/tb5130.pdf","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/journals.iucr.org\/f\/issues\/2018\/11\/00\/tb5130\/tb5130.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,13]],"date-time":"2025-01-13T10:39:53Z","timestamp":1736764793000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.iucr.org\/paper?S2053230X18013547"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,10,16]]},"references-count":40,"journal-issue":{"issue":"11","published-online":{"date-parts":[[2018,11]]}},"alternative-id":["S2053230X18013547"],"URL":"https:\/\/doi.org\/10.1107\/s2053230x18013547","relation":{"is-supplemented-by":[{"id-type":"doi","id":"10.1107\/S2053230X18013547\/tb5130sup1.pdf","asserted-by":"subject"}]},"ISSN":["2053-230X"],"issn-type":[{"value":"2053-230X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,10,16]]},"assertion":[{"value":"Acta Crystallographica Section F: Structural Biology Communications","order":0,"name":"journal","label":"Publication","explanation":{"URL":"http:\/\/journals.iucr.org\/f"},"group":{"name":"general","label":"General"}},{"value":"research communications","order":1,"name":"content_type","label":"Content type","explanation":{"URL":"https:\/\/journals.iucr.org\/f\/services\/notesforauthors.html"},"group":{"name":"general","label":"General"}},{"value":"Available","URL":"http:\/\/scripts.iucr.org\/cgi-bin\/citedin?tb5130","order":2,"name":"article_metrics","label":"Article metrics","group":{"name":"general","label":"General"}},{"value":"Yes","order":0,"name":"peer_reviewed","label":"Peer reviewed","group":{"name":"peer_review","label":"Peer review"}},{"value":"Single blind","order":1,"name":"review_process","label":"Review process","group":{"name":"peer_review","label":"Peer review"}},{"value":"1 August 2018","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication history"}},{"value":"24 September 2018","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication history"}},{"value":"16 October 2018","order":2,"name":"published_online","label":"Published online","group":{"name":"publication_history","label":"Publication history"}},{"value":"This article has supporting information","name":"supplementary_materials","label":"Supplementary materials","explanation":{"URL":"http:\/\/scripts.iucr.org\/cgi-bin\/sendsup?tb5130"}},{"value":"\u00a9 2018 International Union of Crystallography","order":0,"name":"copyright","label":"Copyright","explanation":{"URL":"http:\/\/journals.iucr.org\/services\/copyrightpolicy.html"},"group":{"name":"copyright_and_licensing","label":"Copyright and licencing"}}]}}