1d49: Difference between revisions
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[[Image:1d49.gif|left|200px]] | [[Image:1d49.gif|left|200px]] | ||
'''THE STRUCTURE OF A B-DNA DECAMER WITH A CENTRAL T-A STEP: C-G-A-T-T-A-A-T-C-G''' | {{Structure | ||
|PDB= 1d49 |SIZE=350|CAPTION= <scene name='initialview01'>1d49</scene>, resolution 1.500Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | |||
|ACTIVITY= | |||
|GENE= | |||
}} | |||
'''THE STRUCTURE OF A B-DNA DECAMER WITH A CENTRAL T-A STEP: C-G-A-T-T-A-A-T-C-G''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1D49 is a [ | 1D49 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D49 OCA]. | ||
==Reference== | ==Reference== | ||
Structure of a B-DNA decamer with a central T-A step: C-G-A-T-T-A-A-T-C-G., Quintana JR, Grzeskowiak K, Yanagi K, Dickerson RE, J Mol Biol. 1992 May 20;225(2):379-95. PMID:[http:// | Structure of a B-DNA decamer with a central T-A step: C-G-A-T-T-A-A-T-C-G., Quintana JR, Grzeskowiak K, Yanagi K, Dickerson RE, J Mol Biol. 1992 May 20;225(2):379-95. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/1593626 1593626] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Dickerson, R E.]] | [[Category: Dickerson, R E.]] | ||
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[[Category: double helix]] | [[Category: double helix]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 10:32:39 2008'' | ||
Revision as of 11:32, 20 March 2008
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
THE STRUCTURE OF A B-DNA DECAMER WITH A CENTRAL T-A STEP: C-G-A-T-T-A-A-T-C-G
OverviewOverview
The X-ray crystal structure analysis of the decamer C-G-A-T-T-A-A-T-C-G has been carried out to a resolution of 1.5 A. The crystals are space group P2(1)2(1)2(1), cell dimensions a = 38.60 A, b = 39.10 A, c = 33.07 A. The structure was solved by molecular replacement and refined with X-PLOR and NUCLSQ. The final R factor for a model with 404 DNA atoms, 108 water molecules and one magnesium hexahydrate cation is 15.7%. The double helix is essentially isostructural with C-G-A-T-C-G-A-T-C-G, with closely similar local helix parameters. The structure of the T-T-A-A center differs from that found in C-G-C-G-T-T-A-A-C-G-C-G in that the minor groove in our decamer is wide at the central T-A step rather than narrow, and the twist angle of the T-A step is small (31.1 degrees) rather than large. Whereas the tetrad model provides a convenient framework for discussing local DNA helix structure, it cannot be the entire story. The articulated helix model of DNA structure proposes that certain sequence regions of DNA show preferential twisting or bending properties, whereas other regions are less capable of deformation, in a manner that may be useful in sequence recognition by drugs and protein. Further crystal structure analyses should help to delineate the precise nature of sequence-dependent articulation in the DNA double helix.
About this StructureAbout this Structure
1D49 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
ReferenceReference
Structure of a B-DNA decamer with a central T-A step: C-G-A-T-T-A-A-T-C-G., Quintana JR, Grzeskowiak K, Yanagi K, Dickerson RE, J Mol Biol. 1992 May 20;225(2):379-95. PMID:1593626
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