6vwx: Difference between revisions

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<StructureSection load='6vwx' size='340' side='right'caption='[[6vwx]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
<StructureSection load='6vwx' size='340' side='right'caption='[[6vwx]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[6vwx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bachd Bachd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VWX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6VWX FirstGlance]. <br>
<table><tr><td colspan='2'>[[6vwx]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Alkalihalobacillus_halodurans_C-125 Alkalihalobacillus halodurans C-125]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6VWX FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.1&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">BH1501 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272558 BACHD])</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=POV:(2S)-3-(HEXADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL+2-(TRIMETHYLAMMONIO)ETHYL+PHOSPHATE'>POV</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6vwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vwx OCA], [http://pdbe.org/6vwx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6vwx RCSB], [http://www.ebi.ac.uk/pdbsum/6vwx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6vwx 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=6vwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vwx OCA], [https://pdbe.org/6vwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6vwx RCSB], [https://www.ebi.ac.uk/pdbsum/6vwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6vwx ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q9KCR8_HALH5 Q9KCR8_HALH5]
NaChBac, the first bacterial voltage-gated Na(+) (Nav) channel to be characterized, has been the prokaryotic prototype for studying the structure-function relationship of Nav channels. Discovered nearly two decades ago, the structure of NaChBac has not been determined. Here we present the single particle electron cryomicroscopy (cryo-EM) analysis of NaChBac in both detergent micelles and nanodiscs. Under both conditions, the conformation of NaChBac is nearly identical to that of the potentially inactivated NavAb. Determining the structure of NaChBac in nanodiscs enabled us to examine gating modifier toxins (GMTs) of Nav channels in lipid bilayers. To study GMTs in mammalian Nav channels, we generated a chimera in which the extracellular fragment of the S3 and S4 segments in the second voltage-sensing domain from Nav1.7 replaced the corresponding sequence in NaChBac. Cryo-EM structures of the nanodisc-embedded chimera alone and in complex with HuwenToxin IV (HWTX-IV) were determined to 3.5 and 3.2 A resolutions, respectively. Compared to the structure of HWTX-IV-bound human Nav1.7, which was obtained at an overall resolution of 3.2 A, the local resolution of the toxin has been improved from approximately 6 to approximately 4 A. This resolution enabled visualization of toxin docking. NaChBac can thus serve as a convenient surrogate for structural studies of the interactions between GMTs and Nav channels in a membrane environment.
 
Employing NaChBac for cryo-EM analysis of toxin action on voltage-gated Na(+) channels in nanodisc.,Gao S, Valinsky WC, On NC, Houlihan PR, Qu Q, Liu L, Pan X, Clapham DE, Yan N Proc Natl Acad Sci U S A. 2020 Jun 23;117(25):14187-14193. doi:, 10.1073/pnas.1922903117. Epub 2020 Jun 8. PMID:32513729<ref>PMID:32513729</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6vwx" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Bachd]]
[[Category: Alkalihalobacillus halodurans C-125]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Gao, S]]
[[Category: Gao S]]
[[Category: Yan, N]]
[[Category: Yan N]]
[[Category: Channel]]
[[Category: Membrane protein]]
[[Category: Nachbac]]
[[Category: Sodium ion-selective]]
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