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Platinum in PDB 2r8k: Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna

Enzymatic activity of Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna

All present enzymatic activity of Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna:
2.7.7.7;

Protein crystallography data

The structure of Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna, PDB code: 2r8k was solved by T.Carell, A.Alt, K.Lammens, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 3.30
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 103.740, 103.740, 292.810, 90.00, 90.00, 90.00
R / Rfree (%) 23 / 26.7

Other elements in 2r8k:

The structure of Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna (pdb code 2r8k). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 2 binding sites of Platinum where determined in the Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna, PDB code: 2r8k:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in 2r8k

Go back to Platinum Binding Sites List in 2r8k
Platinum binding site 1 out of 2 in the Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
U:Pt45

b:76.3
occ:1.00
PT1 U:CPT45 0.0 76.3 1.0
N7 U:DG4 1.9 85.0 1.0
N2 U:CPT45 2.0 79.6 1.0
N7 U:DG5 2.0 82.7 1.0
N1 U:CPT45 2.0 79.0 1.0
C8 U:DG4 2.9 88.1 1.0
C5 U:DG5 3.0 86.0 1.0
C8 U:DG5 3.0 84.6 1.0
C5 U:DG4 3.0 90.6 1.0
O6 U:DG5 3.2 88.3 1.0
C6 U:DG5 3.4 87.4 1.0
O6 U:DG4 3.4 93.8 1.0
C6 U:DG4 3.6 92.4 1.0
N9 U:DG4 4.1 91.8 1.0
C4 U:DG5 4.2 87.5 1.0
C4 U:DG4 4.2 91.9 1.0
N9 U:DG5 4.2 88.5 1.0
N4 U:DC6 4.7 85.1 1.0
N1 U:DG5 4.8 88.0 1.0
N1 U:DG4 5.0 92.8 1.0
OP1 U:DG4 5.0 0.2 1.0

Platinum binding site 2 out of 2 in 2r8k

Go back to Platinum Binding Sites List in 2r8k
Platinum binding site 2 out of 2 in the Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Structure of the Eukaryotic Dna Polymerase Eta in Complex with 1,2- D(Gpg)-Cisplatin Containing Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
T:Pt45

b:62.3
occ:1.00
PT1 T:CPT45 0.0 62.3 1.0
N1 T:CPT45 2.0 65.3 1.0
N2 T:CPT45 2.0 65.9 1.0
N7 T:DG5 2.0 71.3 1.0
N7 T:DG4 2.0 69.6 1.0
C8 T:DG4 3.0 72.7 1.0
C8 T:DG5 3.0 74.2 1.0
C5 T:DG5 3.0 75.1 1.0
C5 T:DG4 3.1 72.8 1.0
O6 T:DG4 3.4 73.6 1.0
O6 T:DG5 3.5 77.8 1.0
C6 T:DG4 3.6 73.3 1.0
C6 T:DG5 3.6 77.0 1.0
N9 T:DG4 4.2 76.1 1.0
C4 T:DG5 4.2 75.7 1.0
N9 T:DG5 4.2 75.8 1.0
C4 T:DG4 4.2 74.5 1.0
N4 T:DC6 4.5 71.2 1.0
OP1 T:DG4 4.9 87.2 1.0
N1 T:DG4 5.0 73.3 1.0
N1 T:DG5 5.0 77.8 1.0

Reference:

A.Alt, K.Lammens, C.Chiocchini, A.Lammens, J.C.Pieck, D.Kuch, K.P.Hopfner, T.Carell. Bypass of Dna Lesions Generated During Anticancer Treatment with Cisplatin By Dna Polymerase Eta Science V. 318 967 2007.
ISSN: ISSN 0036-8075
PubMed: 17991862
DOI: 10.1126/SCIENCE.1148242
Page generated: Wed Dec 16 02:04:04 2020

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