158d: Difference between revisions

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[[Image:158d.gif|left|200px]]


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==CRYSTALLOGRAPHIC ANALYSIS OF C-C-A-A-G-C-T-T-G-G AND ITS IMPLICATIONS FOR BENDING IN B-DNA==
The line below this paragraph, containing "STRUCTURE_158d", creates the "Structure Box" on the page.
<StructureSection load='158d' size='340' side='right'caption='[[158d]], [[Resolution|resolution]] 1.90&Aring;' 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'>[[158d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=158D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=158D 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">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</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=CA:CALCIUM+ION'>CA</scene></td></tr>
{{STRUCTURE_158d|  PDB=158d  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=158d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=158d OCA], [https://pdbe.org/158d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=158d RCSB], [https://www.ebi.ac.uk/pdbsum/158d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=158d ProSAT]</span></td></tr>
 
</table>
'''CRYSTALLOGRAPHIC ANALYSIS OF C-C-A-A-G-C-T-T-G-G AND ITS IMPLICATIONS FOR BENDING IN B-DNA'''
__TOC__
 
</StructureSection>
 
[[Category: Large Structures]]
==Overview==
[[Category: Cascio D]]
Stacked B-DNA double helices of sequence C-C-A-A-G-C-T-T-G-G exhibit the same 23 degrees bend at -T-G-G C-C-A- across the nonbonded junction between helices that is observed in the middle of the decamer helix of sequence C-A-T-G-G-C-C-A-T-G, even though the space group (hexagonal vs orthorhombic), crystal packing, and connectedness at the center of the bent segment are quite different. An identical bend occurs across the interhelix junction of every monoclinic crystal structure of sequence C-C-A-x-x-x-x-T-G-G, suggesting that T-G-G-C-C-A constitutes a natural bending element in B-DNA. The bend occurs by rolling stacked base pairs about their long axes; there is no "tilt" component. Of the three possible models for A-tract bending--bent-A-tract, junction bends, or bent-non-A--which cannot be distinguished by solution measurements, all crystallographic evidence over the past 10 years unanimously supports the non-A regions as the actual bending loci.
[[Category: Dickerson RE]]
 
[[Category: Goodsell DS]]
==About this Structure==
[[Category: Grzeskowiak K]]
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=158D OCA].  
[[Category: Kaczor-Grzeskowiak M]]
 
==Reference==
Crystallographic analysis of C-C-A-A-G-C-T-T-G-G and its implications for bending in B-DNA., Grzeskowiak K, Goodsell DS, Kaczor-Grzeskowiak M, Cascio D, Dickerson RE, Biochemistry. 1993 Aug 31;32(34):8923-31. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8364037 8364037]
[[Category: Cascio, D.]]
[[Category: Dickerson, R E.]]
[[Category: Goodsell, D S.]]
[[Category: Grzeskowiak, K.]]
[[Category: Kaczor-Grzeskowiak, M.]]
[[Category: B-dna]]
[[Category: Double helix]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 09:31:32 2008''

Latest revision as of 09:25, 7 February 2024

CRYSTALLOGRAPHIC ANALYSIS OF C-C-A-A-G-C-T-T-G-G AND ITS IMPLICATIONS FOR BENDING IN B-DNACRYSTALLOGRAPHIC ANALYSIS OF C-C-A-A-G-C-T-T-G-G AND ITS IMPLICATIONS FOR BENDING IN B-DNA

Structural highlights

158d is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.9Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

158d, resolution 1.90Å

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