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| | ==Corynebacterium glutamicum OxyR, oxidized form== | | ==Corynebacterium glutamicum OxyR, oxidized form== |
| - | <StructureSection load='6g1b' size='340' side='right' caption='[[6g1b]], [[Resolution|resolution]] 2.28Å' scene=''> | + | <StructureSection load='6g1b' size='340' side='right'caption='[[6g1b]], [[Resolution|resolution]] 2.28Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6g1b]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_glutamicus"_kinoshita_et_al._1958 "micrococcus glutamicus" kinoshita et al. 1958]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G1B FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6g1b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Corynebacterium_glutamicum Corynebacterium glutamicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6G1B FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PS:3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE'>1PS</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.28Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PS:3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE'>1PS</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEO:HYDROGEN+PEROXIDE'>PEO</scene>, <scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">C0I99_13405 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1718 "Micrococcus glutamicus" Kinoshita et al. 1958])</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=6g1b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1b OCA], [https://pdbe.org/6g1b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6g1b RCSB], [https://www.ebi.ac.uk/pdbsum/6g1b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1b ProSAT]</span></td></tr> |
| - | <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=6g1b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1b OCA], [http://pdbe.org/6g1b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g1b RCSB], [http://www.ebi.ac.uk/pdbsum/6g1b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1b ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q8NP91_CORGL Q8NP91_CORGL] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 6g1b" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 6g1b" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Micrococcus glutamicus kinoshita et al. 1958]] | + | [[Category: Corynebacterium glutamicum]] |
| - | [[Category: Messens, J M]] | + | [[Category: Large Structures]] |
| - | [[Category: Pedre, B P]] | + | [[Category: Messens JM]] |
| - | [[Category: Young, D R]] | + | [[Category: Pedre BP]] |
| - | [[Category: Hydrogen peroxide]] | + | [[Category: Young DR]] |
| - | [[Category: Lysr]]
| + | |
| - | [[Category: Redox]]
| + | |
| - | [[Category: Transcription]]
| + | |
| - | [[Category: Transcription factor]]
| + | |
| Structural highlights
6g1b is a 2 chain structure with sequence from Corynebacterium glutamicum. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | X-ray diffraction, Resolution 2.28Å |
| Ligands: | , , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
Q8NP91_CORGL
Publication Abstract from PubMed
Hydrogen peroxide (H2O2) is a strong oxidant capable of oxidizing cysteinyl thiolates, yet only a few cysteine-containing proteins have exceptional reactivity toward H2O2 One such example is the prokaryotic transcription factor OxyR, which controls the antioxidant response in bacteria, and which specifically and rapidly reduces H2O2 In this study, we present crystallographic evidence for the H2O2-sensing mechanism and H2O2-dependent structural transition of Corynebacterium glutamicum OxyR by capturing the reduced and H2O2-bound structures of a serine mutant of the peroxidatic cysteine, and the full-length crystal structure of disulfide-bonded oxidized OxyR. In the H2O2-bound structure, we pinpoint the key residues for the peroxidatic reduction of H2O2, and relate this to mutational assays showing that the conserved active-site residues T107 and R278 are critical for effective H2O2 reduction. Furthermore, we propose an allosteric mode of structural change, whereby a localized conformational change arising from H2O2-induced intramolecular disulfide formation drives a structural shift at the dimerization interface of OxyR, leading to overall changes in quaternary structure and an altered DNA-binding topology and affinity at the catalase promoter region. This study provides molecular insights into the overall OxyR transcription mechanism regulated by H2O2.
Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2 sensing.,Pedre B, Young D, Charlier D, Mourenza A, Rosado LA, Marcos-Pascual L, Wahni K, Martens E, G de la Rubia A, Belousov VV, Mateos LM, Messens J Proc Natl Acad Sci U S A. 2018 Nov 21. pii: 1807954115. doi:, 10.1073/pnas.1807954115. PMID:30463959[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Pedre B, Young D, Charlier D, Mourenza A, Rosado LA, Marcos-Pascual L, Wahni K, Martens E, G de la Rubia A, Belousov VV, Mateos LM, Messens J. Structural snapshots of OxyR reveal the peroxidatic mechanism of H2O2 sensing. Proc Natl Acad Sci U S A. 2018 Nov 21. pii: 1807954115. doi:, 10.1073/pnas.1807954115. PMID:30463959 doi:http://dx.doi.org/10.1073/pnas.1807954115
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