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| | ==NMR Structure of Zervamicin IIB (peptaibol antibiotic) Bound to DPC Micelles== | | ==NMR Structure of Zervamicin IIB (peptaibol antibiotic) Bound to DPC Micelles== |
| - | <StructureSection load='1ih9' size='340' side='right' caption='[[1ih9]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='1ih9' size='340' side='right'caption='[[1ih9]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[1ih9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Emericellopsis_salmosynnemata Emericellopsis salmosynnemata]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IH9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1IH9 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[1ih9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Emericellopsis_salmosynnemata Emericellopsis salmosynnemata]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IH9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IH9 FirstGlance]. <br> |
| - | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=AIB:ALPHA-AMINOISOBUTYRIC+ACID'>AIB</scene>, <scene name='pdbligand=DIV:D-ISOVALINE'>DIV</scene>, <scene name='pdbligand=HYP:4-HYDROXYPROLINE'>HYP</scene>, <scene name='pdbligand=PHL:L-PHENYLALANINOL'>PHL</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 20 models</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1m24|1m24]], [[1r9u|1r9u]], [[1dlz|1dlz]], [[1gq0|1gq0]], [[1joh|1joh]], [[1amt|1amt]], [[1ee7|1ee7]], [[1ob7|1ob7]], [[1ob6|1ob6]], [[1ob4|1ob4]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=AIB:ALPHA-AMINOISOBUTYRIC+ACID'>AIB</scene>, <scene name='pdbligand=DIV:D-ISOVALINE'>DIV</scene>, <scene name='pdbligand=HYP:4-HYDROXYPROLINE'>HYP</scene>, <scene name='pdbligand=PHL:L-PHENYLALANINOL'>PHL</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=1ih9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ih9 OCA], [http://pdbe.org/1ih9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ih9 RCSB], [http://www.ebi.ac.uk/pdbsum/1ih9 PDBsum]</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=1ih9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ih9 OCA], [https://pdbe.org/1ih9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ih9 RCSB], [https://www.ebi.ac.uk/pdbsum/1ih9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ih9 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Emericellopsis salmosynnemata]] | | [[Category: Emericellopsis salmosynnemata]] |
| - | [[Category: Arseniev, A S]] | + | [[Category: Large Structures]] |
| - | [[Category: Balasheva, T A]] | + | [[Category: Arseniev AS]] |
| - | [[Category: Efremov, R G]] | + | [[Category: Balasheva TA]] |
| - | [[Category: Ovchinnikova, T V]] | + | [[Category: Efremov RG]] |
| - | [[Category: Raap, J]] | + | [[Category: Ovchinnikova TV]] |
| - | [[Category: Shenkarev, Z O]] | + | [[Category: Raap J]] |
| - | [[Category: Yakimenko, Z A]] | + | [[Category: Shenkarev ZO]] |
| - | [[Category: Antibiotic]]
| + | [[Category: Yakimenko ZA]] |
| - | [[Category: Antibiotic bent helix]]
| + | |
| - | [[Category: Antifungal]]
| + | |
| - | [[Category: Peptaibol antibacterial]]
| + | |
| - | [[Category: Zrevamicin]]
| + | |
| Structural highlights
1ih9 is a 1 chain structure with sequence from Emericellopsis salmosynnemata. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | Solution NMR, 20 models |
| Ligands: | , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Publication Abstract from PubMed
Zervamicin IIB is a 16-amino acid peptaibol that forms voltage-dependent ion channels with multilevel conductance states in planar lipid bilayers and vesicular systems. The spatial structure of zervamicin IIB bound to dodecylphosphocholine micelles was studied by nuclear magnetic resonance spectroscopy. The set of 20 structures obtained has a bent helical conformation with a mean backbone root mean square deviation value of approximately 0.2 A and resembles the structure in isotropic solvents (Balashova et al., 2000. NMR structure of the channel-former zervamicin IIB in isotropic solvents. FEBS Lett 466:333-336). The N-terminus represents an alpha-helix, whereas the C-terminal part has a mixed 3(10)/alpha(R) hydrogen-bond pattern. In the anisotropic micelle environment, the bending angle on Hyp10 (23 degrees) is smaller than that (47 degrees) in isotropic solvents. In the NOESY (Nuclear Overhauser Effect Spectroscopy) spectra, the characteristic attenuation of the peptide signals by 5- and 16-doxylstearate relaxation probes indicates a peripheral mode of the peptaibol binding to the micelle with the N-terminus immersed slightly deeper into micelle interior. Analysis of the surface hydrophobicity reveals that the zervamicin IIB helix is amphiphilic and well suited to formation of a tetrameric transmembrane bundle, according to the barrel-stave mechanism. The results are discussed in a context of voltage-driven peptaibol insertion into membrane.
Spatial structure of zervamicin IIB bound to DPC micelles: implications for voltage-gating.,Shenkarev ZO, Balashova TA, Efremov RG, Yakimenko ZA, Ovchinnikova TV, Raap J, Arseniev AS Biophys J. 2002 Feb;82(2):762-71. PMID:11806918[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Shenkarev ZO, Balashova TA, Efremov RG, Yakimenko ZA, Ovchinnikova TV, Raap J, Arseniev AS. Spatial structure of zervamicin IIB bound to DPC micelles: implications for voltage-gating. Biophys J. 2002 Feb;82(2):762-71. PMID:11806918
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