{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,22]],"date-time":"2025-10-22T02:57:00Z","timestamp":1761101820454},"reference-count":33,"publisher":"Oxford University Press (OUP)","issue":"14","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,7]]},"DOI":"10.1093\/nar\/gkm509","type":"journal-article","created":{"date-parts":[[2007,7,8]],"date-time":"2007-07-08T00:50:10Z","timestamp":1183855810000},"page":"4755-4766","source":"Crossref","is-referenced-by-count":17,"title":["Probing key DNA contacts in AraR-mediated transcriptional repression of the Bacillus subtilis arabinose regulon"],"prefix":"10.1093","volume":"35","author":[{"given":"Irina Saraiva","family":"Franco","sequence":"first","affiliation":[]},{"given":"Lu\u00eds Jaime","family":"Mota","sequence":"additional","affiliation":[]},{"given":"Cl\u00e1udio Manuel","family":"Soares","sequence":"additional","affiliation":[]},{"given":"Isabel","family":"de S\u00e1-Nogueira","sequence":"additional","affiliation":[]}],"member":"286","published-online":{"date-parts":[[2007,7,7]]},"reference":[{"issue":"Pt 3","key":"key\n\t\t\t\t20170522210218_B1","doi-asserted-by":"crossref","first-page":"957","DOI":"10.1099\/00221287-143-3-957","article-title":"The Bacillus subtilis L-arabinose (ara) operon: nucleotide sequence, genetic organization and expression","volume":"143","author":"S\u00e1-Nogueira","year":"1997","journal-title":"Microbiology"},{"key":"key\n\t\t\t\t20170522210218_B2","doi-asserted-by":"crossref","first-page":"7705","DOI":"10.1128\/jb.179.24.7705-7711.1997","article-title":"Cloning, functional analysis, and transcriptional regulation of the Bacillus subtilis araE gene involved in L-arabinose utilization","volume":"179","author":"S\u00e1-Nogueira","year":"1997","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B3","doi-asserted-by":"crossref","first-page":"1598","DOI":"10.1128\/jb.179.5.1598-1608.1997","article-title":"Negative regulation of L-arabinose metabolism in Bacillus subtilis: characterization of the araR (araC) gene","volume":"179","author":"S\u00e1-Nogueira","year":"1997","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B4","doi-asserted-by":"crossref","first-page":"1287","DOI":"10.1128\/JB.186.5.1287-1296.2004","article-title":"Transcriptional regulation of genes encoding arabinan-degrading enzymes in Bacillus subtilis","volume":"186","author":"Raposo","year":"2004","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B5","doi-asserted-by":"crossref","first-page":"3250","DOI":"10.1128\/JB.180.12.3250-3252.1998","article-title":"The Bacillus subtilis AraE protein displays a broad substrate specificity for several different sugars","volume":"180","author":"Krispin","year":"1998","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B6","doi-asserted-by":"crossref","first-page":"476","DOI":"10.1046\/j.1365-2958.1999.01484.x","article-title":"Mode of action of AraR, the key regulator of L-arabinose metabolism in Bacillus subtilis","volume":"33","author":"Mota","year":"1999","journal-title":"Mol. Microbiol"},{"key":"key\n\t\t\t\t20170522210218_B7","doi-asserted-by":"crossref","first-page":"4190","DOI":"10.1128\/JB.183.14.4190-4201.2001","article-title":"Control of the arabinose regulon in Bacillus subtilis by AraR in vivo: crucial roles of operators, cooperativity, and DNA looping","volume":"183","author":"Mota","year":"2001","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B8","doi-asserted-by":"crossref","first-page":"3024","DOI":"10.1128\/JB.188.8.3024-3036.2006","article-title":"Functional domains of the Bacillus subtilis transcription factor AraR and identification of amino acids important for nucleoprotein complex assembly and effector binding","volume":"188","author":"Franco","year":"2006","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B9","doi-asserted-by":"crossref","first-page":"291","DOI":"10.1111\/j.1574-6968.1991.tb04544.x","article-title":"A new family of bacterial regulatory proteins","volume":"63","author":"Haydon","year":"1991","journal-title":"FEMS Microbiol. Lett"},{"key":"key\n\t\t\t\t20170522210218_B10","doi-asserted-by":"crossref","first-page":"15869","DOI":"10.1016\/S0021-9258(19)49615-4","article-title":"A family of bacterial regulators homologous to Gal and Lac repressors","volume":"267","author":"Weickert","year":"1992","journal-title":"J. Biol. Chem"},{"key":"key\n\t\t\t\t20170522210218_B11","doi-asserted-by":"crossref","first-page":"12507","DOI":"10.1074\/jbc.M110968200","article-title":"Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR and YtrA subfamilies","volume":"277","author":"Rigali","year":"2002","journal-title":"J. Biol. Chem"},{"key":"key\n\t\t\t\t20170522210218_B12","doi-asserted-by":"crossref","first-page":"4315","DOI":"10.1128\/JB.185.15.4315-4325.2003","article-title":"PlmA, a new member of the GntR family, has plasmid maintenance functions in Anabaena sp. strain PCC 7120","volume":"185","author":"Lee","year":"2003","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B13","doi-asserted-by":"crossref","first-page":"1619","DOI":"10.1101\/gr.278202","article-title":"CDART: protein homology by domain architecture","volume":"12","author":"Geer","year":"2002","journal-title":"Genome Res"},{"key":"key\n\t\t\t\t20170522210218_B14","doi-asserted-by":"crossref","first-page":"412","DOI":"10.1038\/364412a0","article-title":"Co-crystal structure of the HNF-3\/fork head DNA-recognition motif resembles histone H5","volume":"364","author":"Clark","year":"1993","journal-title":"Nature"},{"key":"key\n\t\t\t\t20170522210218_B15","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1016\/S0959-440X(99)00057-3","article-title":"Winged helix proteins","volume":"10","author":"Gajiwala","year":"2000","journal-title":"Curr. Opin. Struct. Biol"},{"key":"key\n\t\t\t\t20170522210218_B16","doi-asserted-by":"crossref","first-page":"991","DOI":"10.1016\/S0022-2836(02)00571-5","article-title":"Protein-DNA interactions: amino acid conservation and the effects of mutations on binding specificity","volume":"320","author":"Luscombe","year":"2002","journal-title":"J. Mol. Biol"},{"key":"key\n\t\t\t\t20170522210218_B17","volume-title":"Experiments in Molecular Genetics","author":"Miller","year":"1972"},{"key":"key\n\t\t\t\t20170522210218_B18","doi-asserted-by":"crossref","first-page":"1059","DOI":"10.1016\/S0300-9084(71)80193-1","article-title":"Characterization of two sucrase activities in Bacillus subtilis Marburg","volume":"53","author":"Pascal","year":"1971","journal-title":"Biochimie"},{"key":"key\n\t\t\t\t20170522210218_B19","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1016\/0076-6879(90)85008-C","article-title":"Use of T7 RNA polymerase to direct expression of cloned genes","volume":"185","author":"Studier","year":"1990","journal-title":"Methods Enzymol"},{"key":"key\n\t\t\t\t20170522210218_B20","volume-title":"Molecular cloning: a laboratory manual","author":"Sambrook","year":"1989"},{"key":"key\n\t\t\t\t20170522210218_B21","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1016\/S0378-1119(96)00404-0","article-title":"Plasmids for ectopic integration in Bacillus subtilis","volume":"180","author":"Guerout-Fleury","year":"1996","journal-title":"Gene"},{"key":"key\n\t\t\t\t20170522210218_B22","first-page":"11","article-title":"A method for random mutagenesis of a defined DNA segment using a modified polymerase chain reaction","volume":"1","author":"Leung","year":"1989","journal-title":"Technique"},{"key":"key\n\t\t\t\t20170522210218_B23","doi-asserted-by":"crossref","first-page":"4099","DOI":"10.1128\/JB.185.14.4099-4109.2003","article-title":"Functional dissection of the Bacillus subtilis pur operator site","volume":"185","author":"Bera","year":"2003","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B24","doi-asserted-by":"crossref","first-page":"2041","DOI":"10.1093\/emboj\/20.8.2041","article-title":"The structural basis of acyl coenzyme A-dependent regulation of the transcription factor FadR","volume":"20","author":"van Aalten","year":"2001","journal-title":"EMBO J"},{"key":"key\n\t\t\t\t20170522210218_B25","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1016\/0022-2836(70)90219-6","article-title":"Lac repressor-operator interaction. I. Equilibrium studies","volume":"48","author":"Riggs","year":"1970","journal-title":"J. Mol. Biol"},{"key":"key\n\t\t\t\t20170522210218_B26","doi-asserted-by":"crossref","first-page":"30645","DOI":"10.1074\/jbc.272.49.30645","article-title":"Characterization of the fatty acid-responsive transcription factor FadR: biochemical and genetic analyses of the native conformation and functional domains","volume":"272","author":"Raman","year":"1997","journal-title":"J. Biol. Chem"},{"key":"key\n\t\t\t\t20170522210218_B27","doi-asserted-by":"crossref","first-page":"5167","DOI":"10.1093\/emboj\/19.19.5167","article-title":"Crystal structure of FadR, a fatty acid-responsive transcription factor with a novel acyl coenzyme A-binding fold","volume":"19","author":"van Aalten","year":"2000","journal-title":"EMBO J"},{"key":"key\n\t\t\t\t20170522210218_B28","doi-asserted-by":"crossref","first-page":"17373","DOI":"10.1074\/jbc.M100195200","article-title":"The FadR.DNA complex. Transcriptional control of fatty acid metabolism in Escherichia coli","volume":"276","author":"Xu","year":"2001","journal-title":"J. Biol. Chem"},{"key":"key\n\t\t\t\t20170522210218_B29","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1006\/jmbi.1993.1270","article-title":"Missense mutations in the Bacillus subtilis gnt repressor that diminish operator binding ability","volume":"231","author":"Yoshida","year":"1993","journal-title":"J. Mol. Biol"},{"key":"key\n\t\t\t\t20170522210218_B30","doi-asserted-by":"crossref","first-page":"305","DOI":"10.1111\/j.1574-6968.2001.tb10965.x","article-title":"Transcriptional regulation of pentose utilisation systems in the Bacillus\/Clostridium group of bacteria","volume":"205","author":"Rodionov","year":"2001","journal-title":"FEMS Microbiol. Lett"},{"key":"key\n\t\t\t\t20170522210218_B31","doi-asserted-by":"crossref","first-page":"983","DOI":"10.1128\/jb.184.4.983-991.2002","article-title":"Identification of two myo-inositol transporter genes of Bacillus subtilis","volume":"184","author":"Yoshida","year":"2002","journal-title":"J. Bacteriol"},{"key":"key\n\t\t\t\t20170522210218_B32","doi-asserted-by":"crossref","first-page":"2860","DOI":"10.1093\/nar\/29.13.2860","article-title":"Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level","volume":"29","author":"Luscombe","year":"2001","journal-title":"Nucleic Acids Res"},{"key":"key\n\t\t\t\t20170522210218_B33","doi-asserted-by":"crossref","first-page":"1188","DOI":"10.1101\/gr.849004","article-title":"WebLogo: a sequence logo generator","volume":"14","author":"Crooks","year":"2004","journal-title":"Genome Res"}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/35\/14\/4755\/17421484\/gkm509.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,8,18]],"date-time":"2021-08-18T01:05:10Z","timestamp":1629248710000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article-lookup\/doi\/10.1093\/nar\/gkm509"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2007,7]]},"references-count":33,"journal-issue":{"issue":"14","published-online":{"date-parts":[[2007,7,7]]},"published-print":{"date-parts":[[2007,7]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkm509","relation":{},"ISSN":["1362-4962","0305-1048"],"issn-type":[{"value":"1362-4962","type":"electronic"},{"value":"0305-1048","type":"print"}],"subject":[],"published":{"date-parts":[[2007,7]]}}}