6g8h: Difference between revisions
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The | ==Flavonoid-responsive Regulator FrrA in complex with (R,S)-Naringenin== | ||
<StructureSection load='6g8h' size='340' side='right'caption='[[6g8h]], [[Resolution|resolution]] 2.60Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[6g8h]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_diazoefficiens_USDA_110 Bradyrhizobium diazoefficiens USDA 110]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G8H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6G8H 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]] 2.6Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CWE:(2~{R})-2-(4-hydroxyphenyl)-5,7-bis(oxidanyl)-2,3-dihydrochromen-4-one'>CWE</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NAR:NARINGENIN'>NAR</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></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=6g8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g8h OCA], [https://pdbe.org/6g8h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6g8h RCSB], [https://www.ebi.ac.uk/pdbsum/6g8h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6g8h ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/Q89M71_BRADU Q89M71_BRADU] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Bradyrhizobium diazoefficiens, a bacterial symbiont of soybean and other leguminous plants, enters a nodulation-promoting genetic programme in the presence of host-produced flavonoids and related signalling compounds. Here, we describe the crystal structure of an isoflavonoid-responsive regulator (FrrA) from Bradyrhizobium, as well as cocrystal structures with inducing and noninducing ligands (genistein and naringenin, respectively). The structures reveal a TetR-like fold whose DNA-binding domain is capable of adopting a range of orientations. A single molecule of either genistein or naringenin is asymmetrically bound in a central cavity of the FrrA homodimer, mainly via C-H contacts to the pi-system of the ligands. Strikingly, however, the interaction does not provoke any conformational changes in the repressor. Both the flexible positioning of the DNA-binding domain and the absence of structural change upon ligand binding are corroborated by small-angle X-ray scattering (SAXS) experiments in solution. Together with a model of the promoter-bound state of FrrA our results suggest that inducers act as a wedge, preventing the DNA-binding domains from moving close enough together to interact with successive positions of the major groove of the palindromic operator. | |||
The induction mechanism of the flavonoid-responsive regulator FrrA.,Werner N, Werten S, Hoppen J, Palm GJ, Gottfert M, Hinrichs W FEBS J. 2021 Jul 27. doi: 10.1111/febs.16141. PMID:34314575<ref>PMID:34314575</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: | <div class="pdbe-citations 6g8h" style="background-color:#fffaf0;"></div> | ||
[[Category: | |||
[[Category: | ==See Also== | ||
[[Category: | *[[Tetracycline repressor protein 3D structures|Tetracycline repressor protein 3D structures]] | ||
[[Category: | *[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]] | ||
[[Category: | == References == | ||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Bradyrhizobium diazoefficiens USDA 110]] | |||
[[Category: Large Structures]] | |||
[[Category: Goettfert M]] | |||
[[Category: Hinrichs W]] | |||
[[Category: Hoppen J]] | |||
[[Category: Palm G]] | |||
[[Category: Werner N]] | |||
[[Category: Werten S]] | |||
Latest revision as of 10:58, 17 October 2024
Flavonoid-responsive Regulator FrrA in complex with (R,S)-NaringeninFlavonoid-responsive Regulator FrrA in complex with (R,S)-Naringenin
Structural highlights
FunctionPublication Abstract from PubMedBradyrhizobium diazoefficiens, a bacterial symbiont of soybean and other leguminous plants, enters a nodulation-promoting genetic programme in the presence of host-produced flavonoids and related signalling compounds. Here, we describe the crystal structure of an isoflavonoid-responsive regulator (FrrA) from Bradyrhizobium, as well as cocrystal structures with inducing and noninducing ligands (genistein and naringenin, respectively). The structures reveal a TetR-like fold whose DNA-binding domain is capable of adopting a range of orientations. A single molecule of either genistein or naringenin is asymmetrically bound in a central cavity of the FrrA homodimer, mainly via C-H contacts to the pi-system of the ligands. Strikingly, however, the interaction does not provoke any conformational changes in the repressor. Both the flexible positioning of the DNA-binding domain and the absence of structural change upon ligand binding are corroborated by small-angle X-ray scattering (SAXS) experiments in solution. Together with a model of the promoter-bound state of FrrA our results suggest that inducers act as a wedge, preventing the DNA-binding domains from moving close enough together to interact with successive positions of the major groove of the palindromic operator. The induction mechanism of the flavonoid-responsive regulator FrrA.,Werner N, Werten S, Hoppen J, Palm GJ, Gottfert M, Hinrichs W FEBS J. 2021 Jul 27. doi: 10.1111/febs.16141. PMID:34314575[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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