Chemical elements
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    PDB 1a2e-2bho
    PDB 2ch8-3un9
    PDB 3vdk-5bna
      3vdk
      4dd4
      4dd6
      4dd7
      4dd9
      4ddb
      4ddc
      4dl4
      4dl5
      4dl6
      4dl7
      4eey
      5bna

Platinum in the structure of Human Dna Polymerase Eta Fails to Extend Primer 2 Nucleotide After Cisplatin Crosslink (Pt-GG4). (pdb 4dl7)






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 groupP61
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


Platinum Binding Sites:

Platinum binding site 1 out of 1 in 4dl7


Platinum binding site 1 out of 1 in 4dl7
Click to enlarge
stereopicture of Platinum binding site 1 out of 1 in 4dl7
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:


AtomAtomDistance (A)
PtCE1 A:Phe4234.62
PtN9 T:Dg64.14
PtC8 T:Dg63.03
PtC6 T:Dg63.46
PtN1 T:Dg64.80
PtC5 T:Dg62.99
PtN7 T:Dg62.08
PtC4 T:Dg64.13
PtO6 T:Dg63.22
PtN9 T:Dg74.17
PtC8 T:Dg73.01
PtC6 T:Dg73.58
PtN1 T:Dg74.93
PtC5 T:Dg73.08
PtN7 T:Dg72.10
PtC4 T:Dg74.21
PtO6 T:Dg73.40
PtN1 T:Cpt1012.07
PtN2 T:Cpt1012.02
PtPT1 T:Cpt1010.00
PtO T:Hoh2094.62
PtO T:Hoh2223.34
PtO T:Hoh2233.58
PtO T:Hoh2244.73
PtO T:Hoh2334.66

interactive model:




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