Silver in PDB 8dx1: [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops

The structure of [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops, PDB code: 8dx1 was solved by B.Lu, S.Vecchioni, N.C.Seeman, R.Sha, Y.P.Ohayon, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.72 / 4.79
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	106.18, 106.18, 88.077, 90, 90, 120
R / Rfree (%)	24.5 / 28.9

The structure of [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops also contains other interesting chemical elements:

Mercury

(Hg)

1 atom

The binding sites of Silver atom in the [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops (pdb code 8dx1). This binding sites where shown within 5.0 Angstroms radius around Silver atom.
In total only one binding site of Silver was determined in the [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops, PDB code: 8dx1:

Silver binding site 1 out of 1 in the [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 1 of [C:HG2+/Ag+:C--pH 7 Mops] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution in Mops within 5.0Å range: probe atom residue distance (Å) B Occ B:Ag102 b:136.3 occ:1.00 N4 B:DC4 2.1 170.0 1.0 N4 A:DC12 2.5 178.1 1.0 N3 A:DC12 2.5 178.6 1.0 N3 B:DC4 2.9 170.9 1.0 C4 A:DC12 2.9 179.1 1.0 C4 B:DC4 2.9 170.6 1.0 N6 B:DA3 3.2 171.2 1.0 C6 B:DA3 3.3 171.8 1.0 N1 B:DA3 3.3 172.2 1.0 O4 A:DT13 3.5 204.6 1.0 C2 A:DC12 3.7 179.9 1.0 C4 A:DT13 3.8 205.1 1.0 N3 A:DT13 3.9 204.1 1.0 HG B:HG101 4.1 229.3 0.6 N1 B:DA5 4.1 298.2 1.0 C5 B:DA3 4.1 172.0 1.0 C2 B:DA3 4.1 172.8 1.0 O2 A:DC12 4.1 179.7 1.0 C2 B:DC4 4.2 171.6 1.0 C5 B:DC4 4.3 170.8 1.0 C5 A:DC12 4.3 180.8 1.0 O4 A:DT11 4.4 121.2 1.0 C2 B:DA5 4.4 308.7 1.0 C6 B:DA5 4.6 276.4 1.0 C4 A:DT11 4.6 134.8 1.0 O2 B:DC4 4.7 172.0 1.0 C4 B:DA3 4.8 172.7 1.0 N3 A:DT11 4.8 130.7 1.0 C2 A:DT13 4.8 204.6 1.0 C5 A:DT13 4.8 206.8 1.0 N3 B:DA3 4.9 173.1 1.0 N1 A:DC12 4.9 181.5 1.0 N7 B:DA3 4.9 171.8 1.0 N6 B:DA5 4.9 281.4 1.0

B.Lu, Y.P.Ohayon, K.Woloszyn, C.F.Yang, J.B.Yoder, L.J.Rothschild, S.J.Wind, W.A.Hendrickson, C.Mao, N.C.Seeman, J.W.Canary, R.Sha, S.Vecchioni. Heterobimetallic Base Pair Programming in Designer 3D Dna Crystals. J.Am.Chem.Soc. 2023.
ISSN: ESSN 1520-5126
PubMed: 37530628
DOI: 10.1021/JACS.3C05478