237D

CRYSTAL STRUCTURE OF A DNA DECAMER SHOWING A NOVEL PSEUDO FOUR-WAY HELIX-HELIX JUNCTION

Summary for 237D

• Entry DOI: 10.2210/pdb237d/pdb
• Descriptor: DNA (5'-D(*CP*GP*CP*AP*AP*TP*TP*GP*CP*G)-3') (2 entities in total)
• Functional Keywords: b-dna, double helix, flipped-out bases, intermolecular base triplet, dna
• Total number of polymer chains: 1
• Total formula weight: 3045.01

Authors

Spink, N.,Nunn, C.M.,Vojtechovsky, J.,Berman, H.M.,Neidle, S. (deposition date: 1995-09-28, release date: 1996-03-22, Last modification date: 2024-02-14)

Primary citation

Spink, N.,Nunn, C.M.,Vojtechovsky, J.,Berman, H.M.,Neidle, S.
Crystal structure of a DNA decamer showing a novel pseudo four-way helix-helix junction.
Proc.Natl.Acad.Sci.USA, 92:10767-10771, 1995

PubMed Abstract: The crystal structure of the decanucleotide d(CGCAATTGCG)2 has been solved by a combination of molecular replacement and heavy-atom procedures and has been refined to an R factor of 20.2% at 2.7 A. It is not a fully base-paired duplex but has a central core of eight Watson-Crick base pairs flanked by unpaired terminal guanosines and cytosines. These participate in hydrogen-bonding arrangements with adjacent decamer duplexes in the crystal lattice. The unpaired guanosines are bound in the G+C regions of duplex minor grooves. The cytosines have relatively high mobility, even though they are constrained to be in one region where they are involved in base-paired triplets with G.C base pairs. The 5'-AATT sequence in the duplex region has a narrow minor groove, providing further confirmation of the sequence-dependent nature of groove width.

PubMed: 7479880
DOI: 10.1073/pnas.92.23.10767

Experimental method

X-RAY DIFFRACTION (2.5 Å)