3p4j: Difference between revisions
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==Ultra-high resolution structure of d(CGCGCG)2 Z-DNA== | ==Ultra-high resolution structure of d(CGCGCG)2 Z-DNA== | ||
<StructureSection load='3p4j' size='340' side='right' caption='[[3p4j]], [[Resolution|resolution]] 0.55Å' scene=''> | <StructureSection load='3p4j' size='340' side='right'caption='[[3p4j]], [[Resolution|resolution]] 0.55Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3p4j]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P4J OCA]. For a <b>guided tour on the structure components</b> use [ | <table><tr><td colspan='2'>[[3p4j]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P4J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3P4J FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 0.55Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SPM:SPERMINE'>SPM</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3p4j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3p4j OCA], [https://pdbe.org/3p4j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3p4j RCSB], [https://www.ebi.ac.uk/pdbsum/3p4j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3p4j ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 3p4j" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Z-DNA|Z-DNA]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Brzezinski | [[Category: Large Structures]] | ||
[[Category: Brzuszkiewicz | [[Category: Brzezinski K]] | ||
[[Category: Dauter | [[Category: Brzuszkiewicz A]] | ||
[[Category: Dauter | [[Category: Dauter M]] | ||
[[Category: Jaskolski | [[Category: Dauter Z]] | ||
[[Category: Kubicki | [[Category: Jaskolski M]] | ||
[[Category: Kubicki M]] | |||
Latest revision as of 12:48, 6 September 2023
Ultra-high resolution structure of d(CGCGCG)2 Z-DNAUltra-high resolution structure of d(CGCGCG)2 Z-DNA
Structural highlights
Publication Abstract from PubMedThe crystal structure of a Z-DNA hexamer duplex d(CGCGCG)(2) determined at ultra high resolution of 0.55 A and refined without restraints, displays a high degree of regularity and rigidity in its stereochemistry, in contrast to the more flexible B-DNA duplexes. The estimations of standard uncertainties of all individually refined parameters, obtained by full-matrix least-squares optimization, are comparable with values that are typical for small-molecule crystallography. The Z-DNA model generated with ultra high-resolution diffraction data can be used to revise the stereochemical restraints applied in lower resolution refinements. Detailed comparisons of the stereochemical library values with the present accurate Z-DNA parameters, shows in general a good agreement, but also reveals significant discrepancies in the description of guanine-sugar valence angles and in the geometry of the phosphate groups. High regularity of Z-DNA revealed by ultra high-resolution crystal structure at 0.55 A.,Brzezinski K, Brzuszkiewicz A, Dauter M, Kubicki M, Jaskolski M, Dauter Z Nucleic Acids Res. 2011 Aug 1;39(14):6238-48. Epub 2011 Apr 1. PMID:21459852[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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