Gold in PDB 7edw: Dna Duplex Containing T-T Base Pairs in Complex with Au(III)

The structure of Dna Duplex Containing T-T Base Pairs in Complex with Au(III), PDB code: 7edw was solved by J.Kondo, E.Iwase, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.02 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	37.076, 42.8, 67.383, 90, 90, 90
R / Rfree (%)	16.5 / 18.7

The binding sites of Gold atom in the Dna Duplex Containing T-T Base Pairs in Complex with Au(III) (pdb code 7edw). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 4 binding sites of Gold where determined in the Dna Duplex Containing T-T Base Pairs in Complex with Au(III), PDB code: 7edw:
Jump to Gold binding site number: 1; 2; 3; 4;

Gold binding site 1 out of 4 in the Dna Duplex Containing T-T Base Pairs in Complex with Au(III)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of Dna Duplex Containing T-T Base Pairs in Complex with Au(III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Au101 b:34.2 occ:0.78 O A:HOH219 2.6 30.7 1.0 O4 B:DT18 2.6 30.8 1.0 O4 A:DT6 2.7 27.0 1.0 O B:HOH226 2.7 29.2 1.0 O A:HOH206 2.9 26.8 1.0 O B:HOH216 2.9 27.8 1.0 O B:HOH207 2.9 28.0 1.0 O A:HOH211 2.9 26.1 1.0 C4 B:DT18 3.9 32.0 1.0 C4 A:DT6 3.9 29.2 1.0 N4 B:DC17 4.5 30.1 1.0 O4 A:DT7 4.6 30.4 1.0 O4 B:DT19 4.6 28.9 1.0 O B:HOH217 4.6 40.7 1.0 O A:HOH204 4.6 37.8 1.0 O A:HOH216 4.7 41.2 1.0 N3 B:DT18 4.7 29.5 1.0 N4 A:DC5 4.7 26.9 1.0 N3 A:DT6 4.7 27.5 1.0 C7 B:DT18 4.8 30.3 1.0 C5 B:DT18 4.8 32.9 1.0 C7 A:DT6 4.8 30.9 1.0 O B:HOH222 4.9 37.3 1.0 C5 A:DT6 4.9 30.2 1.0 O A:HOH221 4.9 34.5 1.0

Gold binding site 2 out of 4 in the Dna Duplex Containing T-T Base Pairs in Complex with Au(III)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of Dna Duplex Containing T-T Base Pairs in Complex with Au(III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Au102 b:37.0 occ:0.64 O A:HOH213 2.3 40.1 1.0 O A:HOH218 2.4 39.8 1.0 O A:HOH225 2.5 49.5 1.0 O6 A:DG9 2.6 31.2 1.0 O B:HOH223 2.7 35.1 1.0 O A:HOH208 2.8 35.7 1.0 O A:HOH202 2.9 32.6 1.0 O6 A:DG8 2.9 30.2 1.0 N7 A:DG9 3.2 32.4 1.0 C6 A:DG9 3.4 30.7 1.0 C5 A:DG9 3.6 28.6 1.0 C6 A:DG8 3.7 30.2 1.0 C5 A:DG8 4.3 31.2 1.0 N7 A:DG8 4.3 32.0 1.0 C8 A:DG9 4.4 32.7 1.0 O A:HOH223 4.5 33.4 1.0 N4 B:DC16 4.6 32.7 1.0 N1 A:DG8 4.7 29.0 1.0 O4 A:DT10 4.7 34.4 1.0 N1 A:DG9 4.7 32.0 1.0 O A:HOH221 4.7 34.5 1.0 N4 B:DC17 4.8 30.1 1.0 O A:HOH220 4.8 44.6 1.0 O A:HOH206 4.9 26.8 1.0 C4 A:DG9 5.0 31.2 1.0

Gold binding site 3 out of 4 in the Dna Duplex Containing T-T Base Pairs in Complex with Au(III)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of Dna Duplex Containing T-T Base Pairs in Complex with Au(III) within 5.0Å range: probe atom residue distance (Å) B Occ B:Au101 b:33.1 occ:0.28 AU B:AU101 0.0 33.1 0.3 AU B:AU101 1.7 64.0 0.5 O A:HOH210 2.5 36.4 1.0 O B:HOH205 2.7 38.1 1.0 O B:HOH229 2.7 46.0 1.0 O6 B:DG21 3.3 28.6 1.0 O B:HOH221 3.3 40.6 1.0 C6 B:DG21 4.3 30.1 1.0 N6 A:DA3 4.3 31.3 1.0 O B:HOH209 4.4 38.7 1.0 N7 B:DG21 4.4 30.7 1.0 O4 B:DT22 4.6 32.9 1.0 O B:HOH228 4.6 42.4 1.0 N4 A:DC4 4.6 28.5 1.0 C5 B:DG21 4.7 30.2 1.0 O6 B:DG20 4.9 28.8 1.0

Gold binding site 4 out of 4 in the Dna Duplex Containing T-T Base Pairs in Complex with Au(III)


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of Dna Duplex Containing T-T Base Pairs in Complex with Au(III) within 5.0Å range: probe atom residue distance (Å) B Occ B:Au101 b:64.0 occ:0.52 AU B:AU101 0.0 64.0 0.5 AU B:AU101 1.7 33.1 0.3 O6 B:DG21 2.5 28.6 1.0 O B:HOH221 2.6 40.6 1.0 O B:HOH229 3.0 46.0 1.0 N7 B:DG21 3.1 30.7 1.0 O B:HOH205 3.1 38.1 1.0 O B:HOH209 3.2 38.7 1.0 C6 B:DG21 3.3 30.1 1.0 O6 B:DG20 3.3 28.8 1.0 C5 B:DG21 3.5 30.2 1.0 O A:HOH210 4.0 36.4 1.0 C6 B:DG20 4.2 30.1 1.0 C8 B:DG21 4.3 29.3 1.0 N4 A:DC4 4.6 28.5 1.0 O4 B:DT22 4.6 32.9 1.0 N7 B:DG20 4.6 31.6 1.0 N1 B:DG21 4.6 30.3 1.0 C5 B:DG20 4.7 32.7 1.0 O B:HOH228 4.8 42.4 1.0 N6 A:DA3 4.8 31.3 1.0 C4 B:DG21 4.9 29.7 1.0 N4 A:DC5 4.9 26.9 1.0 O B:HOH207 4.9 28.0 1.0 O B:HOH230 5.0 37.2 1.0

J.Kondo, E.Iwase. Dna Duplex Containing T-T Base Pairs in Complex with Au(III) To Be Published.