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4egy

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<StructureSection load='4egy' size='340' side='right'caption='[[4egy]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
<StructureSection load='4egy' size='340' side='right'caption='[[4egy]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4egy]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EGY FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4egy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EGY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EGY FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.301&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4egz|4egz]]</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">araC, araR, BSU33970, yvbS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4egy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4egy OCA], [https://pdbe.org/4egy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4egy RCSB], [https://www.ebi.ac.uk/pdbsum/4egy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4egy ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4egy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4egy OCA], [http://pdbe.org/4egy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4egy RCSB], [http://www.ebi.ac.uk/pdbsum/4egy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4egy ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/ARAR_BACSU ARAR_BACSU]] Transcriptional repressor of the arabinose utilization genes. Also regulates its own expression. Binds to two sequences within the promoters of the araABDLMNPQ-abfA operon and the araE gene, and to one sequence in the araR promoter.
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[https://www.uniprot.org/uniprot/ARAR_BACSU ARAR_BACSU] Transcriptional repressor of the arabinose utilization genes. Also regulates its own expression. Binds to two sequences within the promoters of the araABDLMNPQ-abfA operon and the araE gene, and to one sequence in the araR promoter.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Transcription factors modulate expression primarily through specific recognition of cognate sequences resident in the promoter region of target genes. AraR (Bacillus subtilis) is a repressor of genes involved in l-arabinose metabolism. It binds to eight different operators present in five different promoters with distinct affinities through a DNA binding domain at the N-terminus. The structures of AraR-NTD in complex with two distinct operators (ORA1 and ORR3) reveal that two monomers bind to one recognition motif (T/ANG) each in the bipartite operators. The structures show that the two recognition motifs are spaced apart by six bases in cases of ORA1 and eight bases in case of ORR3. This increase in the spacing in the operators by two base pairs results in a drastic change in the position and orientation of the second monomer on DNA in the case of ORR3 when compared with ORA1. Because AraR binds to the two operators with distinct affinities to achieve different levels of repression, this observation suggests that the variation in the spacing between core recognition motifs could be a strategy used by this transcription modulator to differentially influence gene expression.
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Spacing between core recognition motifs determines relative orientation of AraR monomers on bipartite operators.,Jain D, Nair DT Nucleic Acids Res. 2013 Jan 1;41(1):639-47. doi: 10.1093/nar/gks962. Epub 2012, Oct 29. PMID:23109551<ref>PMID:23109551</ref>
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==See Also==
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*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 4egy" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Vibrio subtilis ehrenberg 1835]]
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[[Category: Bacillus subtilis]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Jain, D]]
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[[Category: Jain D]]
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[[Category: Nair, D T]]
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[[Category: Nair DT]]
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[[Category: Transcription factor]]
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[[Category: Transcription-dna complex]]
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[[Category: Winged helix turn helix]]
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Current revision

Crystal Structure of AraR(DBD) in complex with operator ORA1

PDB ID 4egy

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