Mercury in PDB 7ygo: Dna Duplex Containing 5OHU-Hg(II)-T Base Pairs

The structure of Dna Duplex Containing 5OHU-Hg(II)-T Base Pairs, PDB code: 7ygo was solved by J.Kondo, H.Torigoe, F.Arakawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.87 / 2.40
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	37.336, 37.336, 54.938, 90, 90, 120
R / Rfree (%)	20.5 / 23.7

The binding sites of Mercury atom in the Dna Duplex Containing 5OHU-Hg(II)-T Base Pairs (pdb code 7ygo). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total only one binding site of Mercury was determined in the Dna Duplex Containing 5OHU-Hg(II)-T Base Pairs, PDB code: 7ygo:

Mercury binding site 1 out of 1 in the Dna Duplex Containing 5OHU-Hg(II)-T Base Pairs


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Dna Duplex Containing 5OHU-Hg(II)-T Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Hg101 b:81.9 occ:0.52 N3 A:DT6 2.0 72.5 1.0 O4 A:DT6 2.6 67.6 1.0 C4 A:DT6 2.6 69.7 1.0 C2 A:DT6 3.1 69.5 1.0 O2 A:DT6 3.4 69.9 1.0 N3 A:OHU7 3.5 76.5 1.0 C4 A:OHU7 3.9 77.5 1.0 C2 A:OHU7 4.0 78.6 1.0 O4 A:OHU7 4.0 77.4 1.0 C5 A:DT6 4.0 69.8 1.0 N4 A:DC5 4.1 62.6 1.0 O2 A:OHU7 4.2 79.2 1.0 N1 A:DT6 4.3 69.7 1.0 C6 A:DT6 4.6 69.7 1.0 N3 A:DC5 4.7 67.9 1.0 C4 A:DC5 4.7 64.1 1.0 C5 A:OHU7 4.8 76.5 1.0 N1 A:OHU7 4.9 79.0 1.0

H.Torigoe, J.Kondo, F.Arakawa. Specific Binding of Hg 2+ to Mismatched Base Pairs Involving 5-Hydroxyuracil in Duplex Dna. J.Inorg.Biochem. V. 241 12125 2023.
ISSN: ISSN 0162-0134
PubMed: 36716510
DOI: 10.1016/J.JINORGBIO.2023.112125