Silver in PDB 8e4d: [U:Ag+:U] Metal-Mediated Dna Base Pair in A Self-Assembling Rhombohedral Lattice

The structure of [U:Ag+:U] Metal-Mediated Dna Base Pair in A Self-Assembling Rhombohedral Lattice, PDB code: 8e4d was solved by S.Vecchioni, B.Lu, 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)	32.53 / 4.19
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	106.965, 106.965, 87.98, 90, 90, 120
R / Rfree (%)	21.8 / 28.5

The binding sites of Silver atom in the [U:Ag+:U] Metal-Mediated Dna Base Pair in A Self-Assembling Rhombohedral Lattice (pdb code 8e4d). 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 [U:Ag+:U] Metal-Mediated Dna Base Pair in A Self-Assembling Rhombohedral Lattice, PDB code: 8e4d:

Silver binding site 1 out of 1 in the [U:Ag+:U] Metal-Mediated Dna Base Pair in A Self-Assembling Rhombohedral Lattice


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 1 of [U:Ag+:U] Metal-Mediated Dna Base Pair in A Self-Assembling Rhombohedral Lattice within 5.0Å range: probe atom residue distance (Å) B Occ B:Ag101 b:91.8 occ:1.00 N3 B:DU4 2.2 207.2 1.0 N3 A:DU12 2.8 172.8 1.0 C2 B:DU4 3.1 221.2 1.0 O2 B:DU4 3.1 241.1 1.0 C4 B:DU4 3.3 182.9 1.0 O4 A:DU12 3.4 180.2 1.0 O4 B:DU4 3.5 170.9 1.0 C4 A:DU12 3.5 176.0 1.0 N1 B:DA3 3.8 174.1 1.0 C2 B:DA5 3.8 232.0 1.0 C2 A:DU12 3.8 168.2 1.0 N3 A:DT13 3.9 186.3 1.0 O2 A:DU12 3.9 166.1 1.0 N1 B:DA5 4.0 217.8 1.0 C6 B:DA3 4.0 169.5 1.0 N3 B:DA5 4.0 187.7 1.0 N6 B:DA3 4.1 162.4 1.0 C2 B:DA3 4.3 181.4 1.0 C4 B:DA5 4.3 191.4 1.0 C6 B:DA5 4.3 200.0 1.0 C2 A:DT13 4.4 182.4 1.0 C4 A:DT13 4.4 187.3 1.0 O2 A:DT13 4.5 182.5 1.0 N1 B:DU4 4.5 205.9 1.0 O4 A:DT13 4.5 191.4 1.0 C5 B:DA5 4.5 196.2 1.0 C5 B:DU4 4.6 176.1 1.0 C5 B:DA3 4.7 172.8 1.0 C5 A:DU12 4.9 174.7 1.0

S.Vecchioni, B.Lu, W.Livernois, Y.P.Ohayon, J.B.Yoder, C.F.Yang, K.Woloszyn, W.Bernfeld, M.P.Anantram, J.W.Canary, W.A.Hendrickson, L.J.Rothschild, C.Mao, S.J.Wind, N.C.Seeman, R.Sha. Metal-Mediated Dna Nanotechnology in 3D: Structural Library By Templated Diffraction. Adv Mater 01938 2023.
ISSN: ISSN 1521-4095
PubMed: 36939292
DOI: 10.1002/ADMA.202201938