6np6: Difference between revisions

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<StructureSection load='6np6' size='340' side='right'caption='[[6np6]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
<StructureSection load='6np6' size='340' side='right'caption='[[6np6]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[6np6]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_33277 Atcc 33277]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5v3e 5v3e]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NP6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NP6 FirstGlance]. <br>
<table><tr><td colspan='2'>[[6np6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5v3e 5v3e]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NP6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NP6 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.6&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CBG53_06810, PGIN_13-1_00953 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=837 ATCC 33277])</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=6np6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6np6 OCA], [http://pdbe.org/6np6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6np6 RCSB], [http://www.ebi.ac.uk/pdbsum/6np6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6np6 ProSAT]</span></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=6np6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6np6 OCA], [https://pdbe.org/6np6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6np6 RCSB], [https://www.ebi.ac.uk/pdbsum/6np6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6np6 ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q7MVK4_PORGI Q7MVK4_PORGI]
Although the HcpR regulator plays a vital step in initiation of the nitrosative stress response in many Gram-negative anaerobic bacteria, the molecular mechanisms that it uses to mediate gas sensing are not well understood. Here, a 2.6 A resolution crystal structure of the N-terminal sensing domain of the anaerobic periodontopathogen Porphyromonas gingivalis HcpR is presented. The protein has classical features of the regulators belonging to the FNR-CRP family and contains a hydrophobic pocket in its N-terminal sensing domain. It is shown that heme bound to HcpR exhibits heme iron as a hexacoordinate system in the absence of nitric oxide (NO) and that upon nitrosylation it transitions to a pentacoordinate system. Finally, small-angle X-ray scattering experiments on full-length HcpR reveal that the C-terminal DNA-binding domain of HcpR has a high degree of interdomain flexibility.
 
Nitrosative stress sensing in Porphyromonas gingivalis: structure of and heme binding by the transcriptional regulator HcpR.,Belvin BR, Musayev FN, Burgner J, Scarsdale JN, Escalante CR, Lewis JP Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):437-450. doi:, 10.1107/S205979831900264X. Epub 2019 Apr 5. PMID:30988260<ref>PMID:30988260</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6np6" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Atcc 33277]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Belvin, B R]]
[[Category: Porphyromonas gingivalis]]
[[Category: Escalante, C R]]
[[Category: Belvin BR]]
[[Category: Lewis, J P]]
[[Category: Escalante CR]]
[[Category: Musayev, F N]]
[[Category: Lewis JP]]
[[Category: Scarsdale, J N]]
[[Category: Musayev FN]]
[[Category: Turner, J]]
[[Category: Scarsdale JN]]
[[Category: Beta barrel]]
[[Category: Turner J]]
[[Category: Dimerization helix]]
[[Category: Heme binding protein]]
[[Category: Transcription]]
[[Category: Transcriptional regulator]]

Latest revision as of 10:07, 3 April 2024

Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas GingivalisCrystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis

Structural highlights

6np6 is a 2 chain structure with sequence from Porphyromonas gingivalis. This structure supersedes the now removed PDB entry 5v3e. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.6Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q7MVK4_PORGI

6np6, resolution 2.60Å

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