Crystal structure of a DNA sequence d(CGTGAATTCACG) at 130K

被引:0
作者
Sbirkova, H. I. [1 ]
Shivachev, B. L. [1 ]
机构
[1] Bulgarian Acad Sci, Inst Mineral & Crystallog Acad Ivan Kostov, Acad G Bonchev Str,Bl 107, BU-1113 Sofia, Bulgaria
来源
BULGARIAN CHEMICAL COMMUNICATIONS | 2016年 / 48卷 / 04期
关键词
DNA; Single crystal; palindrome; BINDING; REFINEMENT; DODECAMER; GROOVE;
D O I
暂无
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
The crystal structure of the oligonucleotide d(CGTGAATTCACG)has previously been reported as a B-type double helix at a resolution of 2.5 angstrom. Here, the structure of this sequence was determined at a higher resolution of 2.00 angstrom in space group P2(1)2(1)2(1). The adjustmentsin crystal packing between the former and latter are described. The present structure allowed more in depth description of the interactions between the oligonucleotides and with the surrounding solvent: the presence of Mg and Cl ions, a greater number of water molecules and non-classical G center dot center dot center dot G hydrogen bonding interactions between adjacent DNA duplexes.
引用
收藏
页码:589 / 592
页数:4
相关论文
共 13 条
  • [1] [Anonymous], 2015, The JyMOL Molecular Graphics Development Component, DOI [10.1007/978-1-4939-7231-9_4, DOI 10.1007/978-1-4939-7231-9_4]
  • [2] 1 Å crystal structures of B-DNA reveal sequence-specific binding and groove-specific bending of DNA by magnesium and calcium
    Chiu, TK
    Dickerson, RE
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 2000, 301 (04) : 915 - 945
  • [3] Desiraju G.R., 1999, The Weak Hydrogen Bond
  • [4] Features and development of Coot
    Emsley, P.
    Lohkamp, B.
    Scott, W. G.
    Cowtan, K.
    [J]. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 2010, 66 : 486 - 501
  • [5] THE STRUCTURE OF CRYSTALS CONTAINING A HYDROGEN-BONDED COMPLEX OF 1-METHYLTHYMINE AND 9-METHYLADENINE
    HOOGSTEEN, K
    [J]. ACTA CRYSTALLOGRAPHICA, 1959, 12 (10): : 822 - 823
  • [6] REFINEMENT OF ECO RI ENDONUCLEASE CRYSTAL-STRUCTURE - A REVISED PROTEIN CHAIN TRACING
    KIM, YC
    GRABLE, JC
    LOVE, R
    GREENE, PJ
    ROSENBERG, JM
    [J]. SCIENCE, 1990, 249 (4974) : 1307 - 1309
  • [7] CRYSTAL-STRUCTURE ANALYSIS OF THE B-DNA DODECAMER CGTGAATTCACG
    LARSEN, TA
    KOPKA, ML
    DICKERSON, RE
    [J]. BIOCHEMISTRY, 1991, 30 (18) : 4443 - 4449
  • [8] Phaser crystallographic software
    McCoy, Airlie J.
    Grosse-Kunstleve, Ralf W.
    Adams, Paul D.
    Winn, Martyn D.
    Storoni, Laurent C.
    Read, Randy J.
    [J]. JOURNAL OF APPLIED CRYSTALLOGRAPHY, 2007, 40 : 658 - 674
  • [9] REFMAC5 for the refinement of macromolecular crystal structures
    Murshudov, Garib N.
    Skubak, Pavol
    Lebedev, Andrey A.
    Pannu, Navraj S.
    Steiner, Roberto A.
    Nicholls, Robert A.
    Winn, Martyn D.
    Long, Fei
    Vagin, Alexei A.
    [J]. ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2011, 67 : 355 - 367
  • [10] CRYSTAL AND MOLECULAR-STRUCTURE OF A DNA FRAGMENT - D(CGTGAATTCACG)
    NARAYANA, N
    GINELL, SL
    RUSSU, IM
    BERMAN, HM
    [J]. BIOCHEMISTRY, 1991, 30 (18) : 4449 - 4455