158D

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

Summary for 158D

• Entry DOI: 10.2210/pdb158d/pdb
• Descriptor: DNA (5'-D(*CP*CP*AP*AP*GP*CP*TP*TP*GP*G)-3'), CALCIUM ION (3 entities in total)
• Functional Keywords: b-dna, double helix, dna
• Total number of polymer chains: 2
• Total formula weight: 6170.16

Authors

Grzeskowiak, K.,Goodsell, D.S.,Kaczor-Grzeskowiak, M.,Cascio, D.,Dickerson, R.E. (deposition date: 1994-02-03, release date: 1994-05-31, Last modification date: 2024-02-07)

Primary citation

Grzeskowiak, K.,Goodsell, D.S.,Kaczor-Grzeskowiak, M.,Cascio, D.,Dickerson, R.E.
Crystallographic analysis of C-C-A-A-G-C-T-T-G-G and its implications for bending in B-DNA.
Biochemistry, 32:8923-8931, 1993

PubMed Abstract: 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.

PubMed: 8364037
DOI: 10.1021/bi00085a025

Experimental method

X-RAY DIFFRACTION (1.9 Å)