463D

CALCIUM FORM OF D(CGCGAATTCGCG)2

Summary for 463D

• Entry DOI: 10.2210/pdb463d/pdb
• Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'), CALCIUM ION (3 entities in total)
• Functional Keywords: ca2+ binding, dickerson-drew dodecamer, dna
• Total number of polymer chains: 2
• Total formula weight: 7487.10

Authors

Liu, J.,Subirana, J.A. (deposition date: 1999-03-29, release date: 1999-10-08, Last modification date: 2024-02-28)

Primary citation

Liu, J.,Subirana, J.A.
Structure of d(CGCGAATTCGCG) in the presence of Ca(2+) ions.
J.Biol.Chem., 274:24749-24752, 1999

PubMed Abstract: The dodecamer d(CGCGAATTCGCG) was the first oligonucleotide to be crystallized as a B-DNA duplex. Its structure was analyzed in detail in the early 1980s. Here we show that, in the presence of Ca(2+), it crystallizes in a different way (R3 space group). The dodecamers form parallel columns of straight duplexes with ten base pairs in the B form. The terminal cytosines in each molecule are disordered, whereas the terminal guanines are placed in the minor groove of neighbor duplexes. The central GAATTC region is practically identical to that found in the classic structure of the same dodecamer crystallized in the P2(1)2(1)2(1) space group in the presence of Mg(2+) and spermine. Its structure is thus independent of the crystallization conditions which have been used.

PubMed: 10455145
DOI: 10.1074/jbc.274.35.24749

Experimental method

X-RAY DIFFRACTION (1.45 Å)