Platinum in PDB 4dl5: Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2).

All present enzymatic activity of Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2).:
2.7.7.7;

The structure of Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2)., PDB code: 4dl5 was solved by Y.Zhao, C.Biertumpfel, M.Gregory, F.Hanaoka, Y.Hua, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.92
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	99.414, 99.414, 82.085, 90.00, 90.00, 120.00
R / Rfree (%)	24.5 / 25.5

The structure of Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2). also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Platinum atom in the Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2). (pdb code 4dl5). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 2 binding sites of Platinum where determined in the Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2)., PDB code: 4dl5:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in the Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2).


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2). within 5.0Å range: probe atom residue distance (Å) B Occ T:Pt101 b:0.6 occ:0.50 PT1 T:CPT101 0.0 0.6 0.5 N2 T:CPT101 1.7 90.8 0.5 N1 T:CPT101 2.0 92.2 0.5 N2 T:CPT101 2.0 91.0 0.5 N7 T:DG4 2.1 90.2 0.5 N7 T:DG5 2.1 91.8 0.5 N7 T:DG5 2.2 89.5 0.5 C7 T:DT6 2.2 90.6 0.5 O4 T:DT6 2.4 89.9 0.5 PT1 T:CPT101 2.5 77.6 0.5 C8 T:DG4 2.7 88.0 0.5 C5 T:DG4 2.8 89.1 0.5 C8 T:DG5 2.8 88.1 0.5 C5 T:DT6 2.9 88.5 0.5 C4 T:DT6 2.9 86.8 0.5 C5 T:DG5 3.0 88.8 0.5 C5 T:DG5 3.0 91.0 0.5 O6 T:DG5 3.0 88.7 0.5 C8 T:DG5 3.2 88.3 0.5 C6 T:DG5 3.3 88.7 0.5 C6 T:DG4 3.5 87.7 0.5 N9 T:DG4 3.6 85.8 0.5 C6 T:DG5 3.6 88.3 0.5 C4 T:DG4 3.7 86.6 0.5 O6 T:DG4 3.7 87.3 0.5 N9 T:DG5 3.7 85.8 0.5 C4 T:DG5 3.8 86.5 0.5 O6 T:DG5 3.8 86.2 0.5 N1 T:CPT101 4.0 82.3 0.5 C6 T:DT6 4.1 85.4 0.5 N3 T:DT6 4.2 86.3 0.5 C4 T:DG5 4.2 85.6 0.5 N7 T:DG4 4.3 81.6 0.5 N9 T:DG5 4.3 85.0 0.5 N4 T:DC7 4.5 81.5 0.5 N6 P:DA8 4.5 82.5 0.5 N1 T:DG4 4.6 85.2 0.5 O4 T:DT6 4.7 82.8 0.5 N1 T:DG5 4.7 84.5 0.5 N1 T:DG5 4.8 84.9 0.5 C8 T:DG4 4.8 81.7 0.5 C1' T:DG4 4.8 83.1 0.5 N3 T:DG4 4.8 88.6 0.5 C1' T:DG5 4.9 88.8 0.5 N3 T:DG5 4.9 88.6 0.5 C2' T:DG5 4.9 84.9 0.5 C2' T:DG4 5.0 84.9 0.5

Platinum binding site 2 out of 2 in the Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2).


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Human Dna Polymerase Eta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2). within 5.0Å range: probe atom residue distance (Å) B Occ T:Pt101 b:77.6 occ:0.50 PT1 T:CPT101 0.0 77.6 0.5 N1 T:CPT101 1.7 92.2 0.5 N7 T:DG4 2.0 90.2 0.5 N2 T:CPT101 2.0 90.8 0.5 N1 T:CPT101 2.1 82.3 0.5 N7 T:DG4 2.1 81.6 0.5 N7 T:DG5 2.1 89.5 0.5 PT1 T:CPT101 2.5 0.6 0.5 C8 T:DG4 2.9 88.0 0.5 C8 T:DG5 3.0 88.1 0.5 C5 T:DG4 3.0 75.9 0.5 C5 T:DG4 3.0 89.1 0.5 C8 T:DG4 3.1 81.7 0.5 C5 T:DG5 3.2 88.8 0.5 O6 T:DG4 3.2 73.7 0.5 C6 T:DG4 3.5 71.8 0.5 O6 T:DG4 3.5 87.3 0.5 O6 T:DG5 3.5 86.2 0.5 C6 T:DG4 3.6 87.7 0.5 C6 T:DG5 3.7 88.3 0.5 N9 T:DG4 4.1 85.8 0.5 N2 T:CPT101 4.1 91.0 0.5 C4 T:DG4 4.2 86.6 0.5 C4 T:DG4 4.2 78.2 0.5 N9 T:DG4 4.2 79.5 0.5 O6 T:DG5 4.2 88.7 0.5 N9 T:DG5 4.2 85.8 0.5 O4 T:DT6 4.2 89.9 0.5 C4 T:DG5 4.3 86.5 0.5 N7 T:DG5 4.4 91.8 0.5 C7 T:DT6 4.6 90.6 0.5 OP1 T:DG4 4.7 75.6 0.5 N1 T:DG4 4.8 67.1 0.5 C6 T:DG5 4.9 88.7 0.5 C4 T:DT6 4.9 86.8 0.5 N1 T:DG4 5.0 85.2 0.5 C5 T:DG5 5.0 91.0 0.5

Y.Zhao, C.Biertumpfel, M.T.Gregory, Y.J.Hua, F.Hanaoka, W.Yang. Structural Basis For Chemoresistance to Cisplatin Mediated By Dna Polymerase Eta Proc.Natl.Acad.Sci.Usa V. 109 7269 2012.
ISSN: ISSN 0027-8424
PubMed: 22529383
DOI: 10.1073/PNAS.1202681109