Silver in PDB 8dx6: [C:HG2+/Ag+:C--pH 5.5] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution

The structure of [C:HG2+/Ag+:C--pH 5.5] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution, PDB code: 8dx6 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)	32.87 / 5.34
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	107.801, 107.801, 90.309, 90, 90, 120
R / Rfree (%)	19.4 / 26.1

The binding sites of Silver atom in the [C:HG2+/Ag+:C--pH 5.5] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution (pdb code 8dx6). 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 5.5] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution, PDB code: 8dx6:

Silver binding site 1 out of 1 in the [C:HG2+/Ag+:C--pH 5.5] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution


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 5.5] Metal-Mediated Dna Base Pair in Tensegrity Triangle in Ag+ and HG2+ Solution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ag101 b:199.8 occ:1.00 N6 B:DA3 2.5 378.2 1.0 N4 B:DC4 2.6 250.3 1.0 N4 A:DC12 2.8 351.2 1.0 C6 B:DA3 3.2 378.1 1.0 O4 A:DT13 3.2 370.7 1.0 C4 B:DC4 3.5 250.8 1.0 N3 B:DC4 3.6 252.1 1.0 C5 B:DA3 3.7 377.5 1.0 N7 B:DA3 3.8 376.9 1.0 C4 A:DC12 3.9 348.7 1.0 N1 B:DA3 4.0 378.9 1.0 C4 A:DT13 4.2 367.6 1.0 O4 A:DT11 4.2 365.7 1.0 N6 B:DA5 4.4 323.0 1.0 N3 A:DT13 4.5 365.5 1.0 C4 A:DT11 4.5 377.2 1.0 C5 A:DC12 4.6 350.1 1.0 N3 A:DC12 4.6 345.5 1.0 C6 B:DA5 4.7 319.6 1.0 N1 B:DA5 4.7 343.3 1.0 C5 B:DC4 4.7 249.9 1.0 C4 B:DA3 4.8 377.7 1.0 C2 B:DC4 4.9 252.6 1.0 N3 A:DT11 4.9 368.1 1.0 C8 B:DA3 4.9 376.8 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