6np6: Difference between revisions

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 <StructureSection load='6np6' size='340' side='right'caption='[[6np6]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6np6]] is a 2 chain structure with sequence from [https://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 [https://proteopedia.org/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" id="ligandDat"><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 ([https://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'>[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>
-<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__
 </StructureSection>
-[[Category: Atcc 33277]]
 [[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]]