1ng8: Difference between revisions

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-[[Image:1ng8.png|left|200px]]
-<!--
+==G15-Gramicidin A in Sodium Dodecyl Sulfate Micelles (NMR)==
-The line below this paragraph, containing "STRUCTURE_1ng8", creates the "Structure Box" on the page.
+<StructureSection load='1ng8' size='340' side='right'caption='[[1ng8]]' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1ng8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Brevibacillus_brevis Brevibacillus brevis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NG8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NG8 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 1 model</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DLE:D-LEUCINE'>DLE</scene>, <scene name='pdbligand=DVA:D-VALINE'>DVA</scene>, <scene name='pdbligand=ETA:ETHANOLAMINE'>ETA</scene>, <scene name='pdbligand=FVA:N-FORMYL-L-VALINE'>FVA</scene>, <scene name='pdbligand=PRD_001131:Mutant+GRAMICIDIN+A'>PRD_001131</scene></td></tr>
-{{STRUCTURE_1ng8|  PDB=1ng8  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ng8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ng8 OCA], [https://pdbe.org/1ng8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ng8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ng8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ng8 ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+To further investigate the effect of single amino acid substitution on the structure and function of the gramicidin channel, an analogue of gramicidin A (GA) has been synthesized in which Trp(15) is replaced by Gly in the critical aqueous interface and cation binding region. The structure of Gly(15)-GA incorporated into SDS micelles has been determined using a combination of 2D-NMR spectroscopy and molecular modeling. Like the parent GA, Gly(15)-GA forms a dimeric channel composed of two single-stranded, right-handed beta(6.3)-helices joined by hydrogen bonds between their N-termini. The replacement of Trp(15) by Gly does not have a significant effect on backbone structure or side chain conformations with the exception of Trp(11) in which the indole ring is rotated away from the channel axis. Measurement of the equilibrium binding constants and Delta G for the binding of monovalent cations to GA and Gly(15)-GA channels incorporated into PC vesicles using (205)Tl NMR spectroscopy shows that monovalent cations bind much more weakly to the Gly(15)-GA channel entrance than to GA channels. Utilizing the magnetization inversion transfer NMR technique, the transport of Na(+) ions through GA and Gly(15)-GA channels incorporated into PC/PG vesicles has been investigated. The Gly(15) substitution produces an increase in the activation enthalpy of transport and thus a significant decrease in the transport rate of the Na(+) ion is observed. The single-channel appearances show that the conducting channels have a single, well-defined structure. Consistent with the NMR results, the single-channel conductances are reduced by 30% and the lifetimes by 70%. It is concluded that the decrease in cation binding, transport, and conductance in Gly(15)-GA results from the removal of the Trp(15) dipole and, to a lesser extent, the change in orientation of Trp(11).
-===G15-Gramicidin A in Sodium Dodecyl Sulfate Micelles (NMR)===
+The structure, cation binding, transport, and conductance of Gly15-gramicidin A incorporated into SDS micelles and PC/PG vesicles.,Sham SS, Shobana S, Townsley LE, Jordan JB, Fernandez JQ, Andersen OS, Greathouse DV, Hinton JF Biochemistry. 2003 Feb 18;42(6):1401-9. PMID:12578352<ref>PMID:12578352</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_12578352}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1ng8" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 12578352 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_12578352}}
-==About this Structure==
-[[1ng8]] is a 2 chain structure of [[Gramicidin]]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NG8 OCA].
 ==See Also==
-*[[Gramicidin]]
+*[[Gramicidin|Gramicidin]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:012578352</ref><references group="xtra"/>
+__TOC__
-[[Category: Hinton, J F.]]
+</StructureSection>
-[[Category: Sham, S S.]]
+[[Category: Brevibacillus brevis]]
-[[Category: Townsley, L E.]]
+[[Category: Large Structures]]
-[[Category: Antibacterial]]
+[[Category: Hinton JF]]
-[[Category: Antibiotic]]
+[[Category: Sham SS]]
-[[Category: Antifungal]]
+[[Category: Townsley LE]]
-[[Category: Gramicidin]]
-[[Category: Linear gramicidin]]
-[[Category: Membrane ion channel]]
-[[Category: Sds micelle]]