Silver in PDB 9ckh: [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs

The structure of [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs, PDB code: 9ckh was solved by S.Vecchioni, M.A.Jong, K.Woloszyn, R.Sha, Y.P.Ohayon, M.A.Gallindo, C.Lopezchamorro, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.67 / 5.92
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	123.277, 123.277, 62.265, 90, 90, 120
R / Rfree (%)	16.1 / 17.9

The binding sites of Silver atom in the [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs (pdb code 9ckh). This binding sites where shown within 5.0 Angstroms radius around Silver atom.
In total 2 binding sites of Silver where determined in the [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs, PDB code: 9ckh:
Jump to Silver binding site number: 1; 2;

Silver binding site 1 out of 2 in the [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 1 of [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ag201 b:230.1 occ:1.00 N3 A:DT111 2.1 233.3 1.0 N1 B:7DA123 2.1 230.7 1.0 O4 A:DT111 2.8 223.1 1.0 C4 A:DT111 2.8 224.3 1.0 N6 B:7DA123 2.9 221.3 1.0 C2 B:7DA123 2.9 229.1 1.0 C6 B:7DA123 3.1 222.3 1.0 C2 A:DT111 3.1 227.0 1.0 O2 A:DT111 3.3 234.2 1.0 C6 A:7DA112 3.4 237.2 1.0 N1 A:7DA112 3.5 232.2 1.0 N6 A:7DA112 3.8 219.9 1.0 C5 A:7DA112 3.8 244.7 1.0 C2 A:7DA112 3.9 239.2 1.0 C5 A:DT111 4.2 222.9 1.0 N3 B:7DA123 4.3 222.5 1.0 C4 A:7DA112 4.3 245.9 1.0 N3 A:7DA112 4.3 243.8 1.0 N1 A:DT111 4.3 214.9 1.0 N3 B:DT122 4.4 217.7 1.0 C5 B:7DA123 4.4 221.1 1.0 N1 A:7GU110 4.5 227.5 1.0 O4 B:DT122 4.5 217.7 1.0 C7 A:7DA112 4.5 253.8 1.0 C4 B:DT122 4.7 216.3 1.0 C6 A:7GU110 4.7 220.6 1.0 N3 B:DC124 4.7 213.2 1.0 C6 A:DT111 4.7 215.6 1.0 C4 B:7DA123 4.8 218.9 1.0 O6 A:7GU110 4.8 217.9 1.0 C2 A:7GU110 4.9 234.6 1.0 N4 B:DC124 5.0 207.0 1.0

Silver binding site 2 out of 2 in the [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 2 of [D2D3-2AG] Tensegrity Triangle with Deazapurines on the Helical and Center Strands with Two Deazaa:Ag+:T Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ D:Ag301 b:240.6 occ:1.00 N1 A:7DA116 2.1 241.3 1.0 N3 D:DT208 2.1 240.5 1.0 O4 D:DT208 2.7 247.0 1.0 C4 D:DT208 2.8 243.5 1.0 N6 A:7DA116 2.9 236.9 1.0 C2 A:7DA116 3.0 240.6 1.0 N1 D:DG207 3.1 242.9 1.0 C6 A:7DA116 3.1 237.9 1.0 C2 D:DT208 3.2 239.2 1.0 O2 D:DT208 3.4 248.1 1.0 C2 D:DG207 3.5 238.1 1.0 C6 D:DG207 3.5 242.2 1.0 N2 D:DG207 3.8 253.1 1.0 O6 D:DG207 3.8 240.0 1.0 N3 A:DC117 3.9 232.7 1.0 C5 D:DT208 4.2 236.5 1.0 O2 A:DC117 4.2 242.0 1.0 C2 A:DC117 4.3 238.6 1.0 C5 D:DG207 4.3 245.6 1.0 N3 A:7DA116 4.3 238.9 1.0 N3 D:DG207 4.3 237.4 1.0 N1 D:DT208 4.4 228.7 1.0 C5 A:7DA116 4.4 240.0 1.0 C4 D:DG207 4.6 233.2 1.0 N1 A:7GU115 4.6 244.8 1.0 C4 A:DC117 4.6 229.5 1.0 C6 D:DT208 4.7 228.4 1.0 C4 A:7DA116 4.8 239.9 1.0 N4 A:DC117 4.9 224.3 1.0 C2 A:7GU115 4.9 250.8 1.0 N3 B:DC119 4.9 232.4 1.0 C6 A:7GU115 5.0 235.2 1.0

C.Lopez Chamorro, M.A.Jong. Deazapurine Metal-Mediated Nanostructures To Be Published.