158d
From Proteopedia
(New page: 200px<br /><applet load="158d" size="450" color="white" frame="true" align="right" spinBox="true" caption="158d, resolution 1.900Å" /> '''CRYSTALLOGRAPHIC AN...) |
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| - | [[Image:158d.gif|left|200px]]<br /><applet load="158d" size=" | + | [[Image:158d.gif|left|200px]]<br /><applet load="158d" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="158d, resolution 1.900Å" /> | caption="158d, resolution 1.900Å" /> | ||
'''CRYSTALLOGRAPHIC ANALYSIS OF C-C-A-A-G-C-T-T-G-G AND ITS IMPLICATIONS FOR BENDING IN B-DNA'''<br /> | '''CRYSTALLOGRAPHIC ANALYSIS OF C-C-A-A-G-C-T-T-G-G AND ITS IMPLICATIONS FOR BENDING IN B-DNA'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Stacked B-DNA double helices of sequence C-C-A-A-G-C-T-T-G-G exhibit the | + | 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. |
==About this Structure== | ==About this Structure== | ||
| - | 158D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with CA as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 158D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=CA:'>CA</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=158D OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Cascio, D.]] | [[Category: Cascio, D.]] | ||
| - | [[Category: Dickerson, R | + | [[Category: Dickerson, R E.]] |
| - | [[Category: Goodsell, D | + | [[Category: Goodsell, D S.]] |
[[Category: Grzeskowiak, K.]] | [[Category: Grzeskowiak, K.]] | ||
[[Category: Kaczor-Grzeskowiak, M.]] | [[Category: Kaczor-Grzeskowiak, M.]] | ||
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[[Category: double helix]] | [[Category: double helix]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:38:36 2008'' |
Revision as of 09:38, 21 February 2008
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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
Overview
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.
About this Structure
158D is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.
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:8364037
Page seeded by OCA on Thu Feb 21 11:38:36 2008
