The binding sites of Platinum atom in the structure of Human Dna Polymerase Eta Fails to Extend Primer 2 Nucleotide After Cisplatin Crosslink (Pt-GG4). (pdb code 4dl7). This binding sites where shown with 5.0 Angstroms radius around Platinum atom.
The 4dl7 structure was solved by Y.ZHAO, C.BIERTUMPFEL, M.GREGORY, Y.HUA, F.HANAOKA, W.YANG, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
| Resolution (A) | 30.0-2.0 | | Space group | P61 | | a (A) | 99.000 | | b (A) | 99.000 | | c (A) | 81.890 | | alpha (°) | 90.00 | | beta (°) | 90.00 | | gamma (°) | 120.00 | | Rfactor (%) | 19.2 | | Rfree (%) | 21.4 |
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Platinum binding site 1 out of 1 in 4dl7
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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 4dl7. 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: Phe423, T: Dg6, T: Dg7, T: Cpt101, T: Hoh209, T: Hoh222, T: Hoh223, T: Hoh224, T: Hoh233, | conact list:
| Atom | Atom | Distance (A) | | Pt | CE1 A:Phe423 | 4.62 | | Pt | N9 T:Dg6 | 4.14 | | Pt | C8 T:Dg6 | 3.03 | | Pt | C6 T:Dg6 | 3.46 | | Pt | N1 T:Dg6 | 4.80 | | Pt | C5 T:Dg6 | 2.99 | | Pt | N7 T:Dg6 | 2.08 | | Pt | C4 T:Dg6 | 4.13 | | Pt | O6 T:Dg6 | 3.22 | | Pt | N9 T:Dg7 | 4.17 | | Pt | C8 T:Dg7 | 3.01 | | Pt | C6 T:Dg7 | 3.58 | | Pt | N1 T:Dg7 | 4.93 | | Pt | C5 T:Dg7 | 3.08 | | Pt | N7 T:Dg7 | 2.10 | | Pt | C4 T:Dg7 | 4.21 | | Pt | O6 T:Dg7 | 3.40 | | Pt | N1 T:Cpt101 | 2.07 | | Pt | N2 T:Cpt101 | 2.02 | | Pt | PT1 T:Cpt101 | 0.00 | | Pt | O T:Hoh209 | 4.62 | | Pt | O T:Hoh222 | 3.34 | | Pt | O T:Hoh223 | 3.58 | | Pt | O T:Hoh224 | 4.73 | | Pt | O T:Hoh233 | 4.66 |
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