The binding sites of Platinum atom in the structure of 2.4 Angstrom Crystal Structure of An Oxaliplatin 1,2-D(Gpg) Intrastrand Cross-Link in A Dna Dodecamer Duplex (pdb code 1ihh). This binding sites where shown with 5.0 Angstroms radius around Platinum atom.
The 1ihh structure was solved by B.SPINGLER, D.A.WHITTINGTON, S.J.LIPPARD, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
| Resolution (A) | 100.0-2.4 | | Space group | I222 | | a (A) | 41.942 | | b (A) | 51.246 | | c (A) | 87.049 | | alpha (°) | 90.00 | | beta (°) | 90.00 | | gamma (°) | 90.00 | | Rfactor (%) | 23 | | Rfree (%) | 28.7 |
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Platinum binding site 1 out of 1 in 1ihh
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Click to enlarge | 
Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Platinum in the PDB 1ihh. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Dg6, A: Dg7, A: Dnh40, | conact list:
| Atom | Atom | Distance (A) | | Pt | N9 A:Dg6 | 3.88 | | Pt | C8 A:Dg6 | 2.81 | | Pt | C6 A:Dg6 | 3.56 | | Pt | N1 A:Dg6 | 4.81 | | Pt | C5 A:Dg6 | 2.91 | | Pt | N7 A:Dg6 | 1.98 | | Pt | C4 A:Dg6 | 3.94 | | Pt | O6 A:Dg6 | 3.57 | | Pt | N9 A:Dg7 | 4.04 | | Pt | C8 A:Dg7 | 2.89 | | Pt | C6 A:Dg7 | 3.47 | | Pt | N1 A:Dg7 | 4.80 | | Pt | C5 A:Dg7 | 2.94 | | Pt | N7 A:Dg7 | 1.94 | | Pt | C4 A:Dg7 | 4.07 | | Pt | O6 A:Dg7 | 3.40 | | Pt | N1 A:Dnh40 | 2.03 | | Pt | C6 A:Dnh40 | 4.28 | | Pt | C5 A:Dnh40 | 4.27 | | Pt | N2 A:Dnh40 | 2.04 | | Pt | C4 A:Dnh40 | 2.86 | | Pt | C3 A:Dnh40 | 2.89 |
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