1G6D

STRUCTURE OF PEPTIDYL-D(CGCAATTGCG) IN THE PRESENCE OF ZINC IONS

1G6D の概要

• エントリーDOI: 10.2210/pdb1g6d/pdb
• 分子名称: PEPTIDYL-D(CGCAATTGCG), ZINC ION (3 entities in total)
• 機能のキーワード: dna, peptidyl-dna complex, zn ions
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 3241.23

構造登録者

Soler-Lopez, M.,Malinina, L.,Tereshko, V.,Zarytova, V.,Subirana, J.A. (登録日: 2000-11-04, 公開日: 2002-04-19, 最終更新日: 2024-02-07)

主引用文献

Soler-Lopez, M.,Malinina, L.,Tereshko, V.,Zarytova, V.,Subirana, J.A.
Interaction of zinc ions with d(CGCAATTGCG) in a 2.9 A resolution X-ray structure.
J.Biol.Inorg.Chem., 7:533-538, 2002

PubMed Abstract: We have synthesized and crystallized in the presence of Zn(2+) ions the peptidyl-oligonucleotide adduct CH(3)CO-(Arg)(4)-NH-(CH(2))(6)-NH-p-d(CGCAATTGCG). This is the first structure obtained from a deoxyoligonucleotide crystallized in the presence of zinc ions. Zn ions are clearly visible in the 2.9 A resolution map. On the other hand, the peptide tail is not visible in the crystal structure as determined by X-ray diffraction. The terminal bases C1 and G10 are found in extra-helical positions. Their phosphates are ligands of a Zn(2+) ion, located in a special position of the unit cell. This ion plays an important role in the packing arrangement, since it binds four different DNA molecules. Two other Zn(2+) ions are also important for DNA packing. They interact specifically with the N7 atoms of the terminal G2 and G10 bases, but not with the internal G8. This result supports the hypothesis that transition metals do not interact with the bases of duplex DNA in the B form.

PubMed: 11941511
DOI: 10.1007/s00775-001-0333-z

実験手法

X-RAY DIFFRACTION (2.9 Å)