3u89

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Current revision (13:50, 14 March 2024) (edit) (undo)
 
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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3u89]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ggb 3ggb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U89 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3U89 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3u89]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ggb 3ggb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U89 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3U89 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 0.96&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ggi|3ggi]], [[3ggk|3ggk]]</div></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=3u89 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u89 OCA], [https://pdbe.org/3u89 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3u89 RCSB], [https://www.ebi.ac.uk/pdbsum/3u89 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3u89 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=3u89 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u89 OCA], [https://pdbe.org/3u89 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3u89 RCSB], [https://www.ebi.ac.uk/pdbsum/3u89 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3u89 ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
 
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== Publication Abstract from PubMed ==
 
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Increasingly exact measurement of single crystal X-ray diffraction data offers detailed characterization of DNA conformation, hydration and electrostatics. However, instead of providing a more clear and unambiguous image of DNA, highly accurate diffraction data reveal polymorphism of the DNA atomic positions and conformation and hydration. Here we describe an accurate X-ray structure of B-DNA, painstakingly fit to a multistate model that contains multiple competing positions of most of the backbone and of entire base pairs. Two of ten base-pairs of CCAGGCCTGG are in multiple states distinguished primarily by differences in slide. Similarly, all the surrounding ions are seen to fractionally occupy discrete competing and overlapping sites. And finally, the vast majority of water molecules show strong evidence of multiple competing sites. Conventional resolution appears to give a false sense of homogeneity in conformation and interactions of DNA. In addition, conventional resolution yields an average structure that is not accurate, in that it is different from any of the multiple discrete structures observed at high resolution. Because base pair positional heterogeneity has not always been incorporated into model-building, even some high and ultrahigh-resolution structures of DNA do not indicate the full extent of conformational polymorphism.
 
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B-DNA structure is intrinsically polymorphic: even at the level of base pair positions.,Maehigashi T, Hsiao C, Kruger Woods K, Moulaei T, Hud NV, Dean Williams L Nucleic Acids Res. 2011 Dec 17. PMID:22180536<ref>PMID:22180536</ref>
 
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
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</div>
 
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<div class="pdbe-citations 3u89" style="background-color:#fffaf0;"></div>
 
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Komeda, S]]
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[[Category: Komeda S]]
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[[Category: Maehigashi, T]]
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[[Category: Maehigashi T]]
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[[Category: Moulaei, T]]
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[[Category: Moulaei T]]
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[[Category: Williams, L D]]
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[[Category: Williams LD]]
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[[Category: Woods, K K]]
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[[Category: Woods KK]]
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[[Category: B-dna]]
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[[Category: Dna]]
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Current revision

Crystal structure of one turn of g/c rich b-dna revisited

PDB ID 3u89

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