1bd1
From Proteopedia
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| - | [[Image:1bd1.gif|left|200px]] | + | [[Image:1bd1.gif|left|200px]] |
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| - | '''CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA''' | + | {{Structure |
| + | |PDB= 1bd1 |SIZE=350|CAPTION= <scene name='initialview01'>1bd1</scene>, resolution 1.600Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=TEA:TRIETHYLAMMONIUM ION'>TEA</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1BD1 is a [ | + | 1BD1 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=1BD1 OCA]. |
==Reference== | ==Reference== | ||
| - | Crystallographic study of one turn of G/C-rich B-DNA., Heinemann U, Alings C, J Mol Biol. 1989 Nov 20;210(2):369-81. PMID:[http:// | + | Crystallographic study of one turn of G/C-rich B-DNA., Heinemann U, Alings C, J Mol Biol. 1989 Nov 20;210(2):369-81. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/2600970 2600970] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Heinemann, U.]] | [[Category: Heinemann, U.]] | ||
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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 10:09:22 2008'' |
Revision as of 08:09, 20 March 2008
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| , resolution 1.600Å | |||||||
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| Ligands: | |||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA
Overview
The DNA decamer d(CCAGGCCTGG) has been studied by X-ray crystallography. At a nominal resolution of 1.6 A, the structure was refined to R = 16.9% using stereochemical restraints. The oligodeoxyribonucleotide forms a straight B-DNA double helix with crystallographic dyad symmetry and ten base-pairs per turn. In the crystal lattice, DNA fragments stack end-to-end along the c-axis to form continuous double helices. The overall helical structure and, notably, the groove dimensions of the decamer are more similar to standard, fiber diffraction-determined B-DNA than A-tract DNA. A unique stacking geometry is observed at the CA/TG base-pair step, where an increased rotation about the helix axis and a sliding motion of the base-pairs along their long axes leads to a superposition of the base rings with neighboring carbonyl and amino functions. Three-center (bifurcated) hydrogen bonds are possible at the CC/GG base-pair steps of the decamer. In their common sequence elements, d(CCAGGCCTGG) and the related G.A mismatch decamer d(CCAAGATTGG) show very similar three-dimensional structures, except that d(CCAGGCCTGG) appears to have a less regularly hydrated minor groove. The paucity of minor groove hydration in the center of the decamer may be a general feature of G/C-rich DNA and explain its relative instability in the B-form of DNA.
About this Structure
1BD1 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Crystallographic study of one turn of G/C-rich B-DNA., Heinemann U, Alings C, J Mol Biol. 1989 Nov 20;210(2):369-81. PMID:2600970
Page seeded by OCA on Thu Mar 20 10:09:22 2008
