1ICG

STRUCTURE OF THE HYBRID RNA/DNA R-GCUUCGGC-D[F]U IN PRESENCE OF IR(NH3)6+++

1ICG の概要

• エントリーDOI: 10.2210/pdb1icg/pdb
• 関連するPDBエントリー: 165D
• 分子名称: 5'-R(*GP*CP*UP*UP*CP*GP*GP*C)-D(P*(UFP))-3', CHLORIDE ION, IRIDIUM HEXAMMINE ION, ... (4 entities in total)
• 機能のキーワード: rna/dna hybrid, fluoro-uracil, c-u mismatch, g-u mismatch, rhodium hexammine, iridium hexammine, dna-rna complex, dna/rna
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 6313.09

構造登録者

Cruse, W.,Saludjian, P.,Neuman, A.,Prange, T. (登録日: 2001-03-31, 公開日: 2001-04-09, 最終更新日: 2023-08-09)

主引用文献

Cruse, W.,Saludjian, P.,Neuman, A.,Prange, T.
Destabilizing effect of a fluorouracil extra base in a hybrid RNA duplex compared with bromo and chloro analogues.
Acta Crystallogr.,Sect.D, 57:1609-1613, 2001

PubMed Abstract: In the presence of cobalt, rhodium or iridium hexammine salts, the RNA/DNA hybrid r-GCUUCGGC-d(X)U (with X = F, Cl or Br) crystallizes as a double-stranded helix with four consecutive G-U and C-U mismatches. The deoxy chloro- and bromouracil derivatives are isomorphous, space group C2, unit-cell parameters a = 53.80, b = 19.40, c = 50.31 A, beta = 109.9 degrees, with the same infinite helix arrangement in the packing along the c axis with one extra DNA halogenouracil base included in the stacking. However, the fluorouracil derivative, with unit-cell parameters a = 53.75, b = 19.40, c = 45.84 A, beta = 105.7 degrees, is not isomorphous. The corresponding extra DNA base d(F)U of the second strand is ejected out of the helical stack, leading to a shortening of the c axis. The specific destabilization of the fluorouracil for the duplex building is analyzed in terms of the polarization effect of the halogen atom attached to the 3'-terminal base that modulates its interactions.

PubMed: 11679725
DOI: 10.1107/S0907444901012318

実験手法

X-RAY DIFFRACTION (1.53 Å)