1bna: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[1bna]] is a 2 chain structure. The November 2001 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA'' by David S. Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2001_11 10.2210/rcsb_pdb/mom_2001_11]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BNA FirstGlance]. <br> | <table><tr><td colspan='2'>[[1bna]] is a 2 chain structure. The November 2001 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA'' by David S. Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2001_11 10.2210/rcsb_pdb/mom_2001_11]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BNA FirstGlance]. <br> | ||
</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=1bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bna OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bna RCSB], [http://www.ebi.ac.uk/pdbsum/1bna PDBsum]</span></td></tr> | </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=1bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bna OCA], [http://pdbe.org/1bna PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1bna RCSB], [http://www.ebi.ac.uk/pdbsum/1bna PDBsum]</span></td></tr> | ||
</table> | </table> | ||
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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 1bna" style="background-color:#fffaf0;"></div> | |||
==See Also== | ==See Also== | ||
Revision as of 03:54, 11 September 2015
STRUCTURE OF A B-DNA DODECAMER. CONFORMATION AND DYNAMICSSTRUCTURE OF A B-DNA DODECAMER. CONFORMATION AND DYNAMICS
Structural highlights
Publication Abstract from PubMedThe crystal structure of the synthetic DNA dodecamer d(CpGpCpGpApApTpTpCpGpCpG) has been refined to a residual error of R = 17.8% at 1.9-A resolution (two-sigma data). The molecule forms slightly more than one complete turn of right-handed double-stranded B helix. The two ends of the helix overlap and interlock minor grooves with neighboring molecules up and down a 2(1) screw axis, producing a 19 degrees bend in helix axis over the 11-base-pair steps of the dodecamer. In the center of the molecule, where perturbation is least, the helix has a mean rotation of 36.9 degrees per step, or 9.8 base pairs per turn. The mean propeller twist (total dihedral angle between base planes) between A . T base pairs in the center of the molecule is 17.3 degrees, and that between C . G pairs on the two ends averages 11.5 degrees. Individual deoxyribose ring conformations as measured by the C5'-C4'-C3'-O3' torsion angle delta, exhibit an approximately Gaussian distribution centered around the C1'-exo position with delta avg = 123 degrees and a range of 79 degrees to 157 degrees. Purine sugars cluster at high delta values, and pyrimidine sugars cluster at lower delta. A tendency toward 2-fold symmetry in sugar conformation about the center of the molecule is detectable in spite of the destruction of ideal 2-fold symmetry by the molecular bending. More strikingly, sugar conformations of paired based appear to follow a "principle of anticorrelation," with delta values lying approximately the same distance to either side of the center value, delta = 123 degrees. This same anticorrelation is also observed in other DNA and DNA . RNA structures. Structure of a B-DNA dodecamer: conformation and dynamics.,Drew HR, Wing RM, Takano T, Broka C, Tanaka S, Itakura K, Dickerson RE Proc Natl Acad Sci U S A. 1981 Apr;78(4):2179-83. PMID:6941276[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences |
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