5loo: Difference between revisions

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New page: '''Unreleased structure''' The entry 5loo is ON HOLD until Paper Publication Authors: Wilkinson, A.J., Levdikov, V.M., Blagova, E.V. Description: Structure of full length unliganded Co...
 
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'''Unreleased structure'''


The entry 5loo is ON HOLD  until Paper Publication
==Structure of full length unliganded CodY from Bacillus subtilis==
<StructureSection load='5loo' size='340' side='right'caption='[[5loo]], [[Resolution|resolution]] 4.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5loo]] is a 14 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=5LOO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5LOO FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 4.5&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5loo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5loo OCA], [https://pdbe.org/5loo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5loo RCSB], [https://www.ebi.ac.uk/pdbsum/5loo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5loo ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/CODY_BACSU CODY_BACSU] DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase and sporulation. It is a GTP-binding protein that senses the intracellular GTP concentration as an indicator of nutritional limitations. At low GTP concentration it no longer binds GTP and stop to act as a transcriptional repressor.<ref>PMID:8830686</ref> <ref>PMID:11331605</ref>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
CodY is a branched-chain amino acid (BCAA) and GTP sensor, and a global regulator of transcription in low G + C Gram-positive bacteria. It controls the expression of over 100 genes and operons, principally by repressing during growth genes whose products are required for adaptations to nutrient limitation. CodY consists of a GAF domain that binds BCAAs and a winged helix-turn-helix (wHTH) domain that binds to DNA, but the way in which these domains interact and the structural basis of the BCAA-dependence of this interaction are unknown. To gain new insights, we determined the crystal structure of unliganded CodY from Bacillus subtilis revealing a 10-turn alpha-helix linking otherwise discrete GAF and wHTH domains. The structure of CodY in complex with isoleucine revealed a reorganised GAF domain. In both complexes CodY was tetrameric. Size exclusion chromatography with multiangle laser light scattering (SEC-MALLS) experiments showed that CodY is a dimer at concentrations found in bacterial cells. Comparison of structures of dimers of unliganded CodY and CodY-Ile derived from the tetramers showed a splaying of the wHTH domains when Ile was bound; splaying is likely to account for the increased affinity of Ile-bound CodY for DNA. Electrophoretic mobility shift and SEC-MALLS analyses of CodY binding to 19-36 base-pair operator fragment are consistent with isoleucine-dependent binding of two CodY dimers per duplex. The implications of these observations for effector control of CodY activity are discussed.


Authors: Wilkinson, A.J., Levdikov, V.M., Blagova, E.V.
Structure of the Branched Chain Amino Acid and GTP Sensing Global Regulator, CodY, from Bacillus subtilis.,Levdikov VM, Blagova EV, Young VL, Belitsky BR, Lebedev A, Sonenshein AL, Wilkinson AJ J Biol Chem. 2016 Dec 23. pii: jbc.M116.754309. doi: 10.1074/jbc.M116.754309. PMID:28011634<ref>PMID:28011634</ref>


Description: Structure of full length unliganded CodY from Bacillus subtilis
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Wilkinson, A.J]]
<div class="pdbe-citations 5loo" style="background-color:#fffaf0;"></div>
[[Category: Blagova, E.V]]
== References ==
[[Category: Levdikov, V.M]]
<references/>
__TOC__
</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Large Structures]]
[[Category: Blagova EV]]
[[Category: Levdikov VM]]
[[Category: Wilkinson AJ]]
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