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Platinum in PDB 2r8j: 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: 2r8j 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) 20.00 / 3.10
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 104.090, 104.090, 293.050, 90.00, 90.00, 90.00
R / Rfree (%) 20.8 / 25.7

Other elements in 2r8j:

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 2r8j). 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: 2r8j:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in 2r8j

Go back to Platinum Binding Sites List in 2r8j
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:42.1
occ:1.00
PT1 U:CPT45 0.0 42.1 1.0
N7 U:DG4 2.0 44.4 1.0
N2 U:CPT45 2.0 39.4 1.0
N1 U:CPT45 2.0 38.8 1.0
N7 U:DG5 2.0 39.9 1.0
C8 U:DG4 2.9 46.7 1.0
C8 U:DG5 3.0 40.8 1.0
C5 U:DG4 3.0 50.3 1.0
C5 U:DG5 3.0 39.0 1.0
O6 U:DG5 3.2 35.5 1.0
O6 U:DG4 3.4 55.1 1.0
C6 U:DG5 3.5 36.8 1.0
C6 U:DG4 3.6 52.5 1.0
N4 U:DC6 3.8 49.7 1.0
N9 U:DG4 4.1 50.9 1.0
N9 U:DG5 4.2 42.7 1.0
C4 U:DG4 4.2 50.4 1.0
C4 U:DG5 4.2 39.8 1.0
C4 U:DC6 4.3 48.6 1.0
N3 U:DC6 4.4 48.7 1.0
OP2 U:DG4 4.6 67.8 1.0
SD A:MET74 4.8 30.8 1.0
N1 U:DG5 4.9 35.7 1.0
O6 Q:DG13 5.0 26.6 1.0
N1 U:DG4 5.0 54.4 1.0

Platinum binding site 2 out of 2 in 2r8j

Go back to Platinum Binding Sites List in 2r8j
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:50.0
occ:1.00
PT1 T:CPT45 0.0 50.0 1.0
N7 T:DG4 2.0 65.0 1.0
N2 T:CPT45 2.0 57.1 1.0
N7 T:DG5 2.0 64.8 1.0
N1 T:CPT45 2.0 55.1 1.0
C8 T:DG4 2.9 70.5 1.0
C8 T:DG5 3.0 68.3 1.0
C5 T:DG4 3.0 71.8 1.0
C5 T:DG5 3.0 70.4 1.0
O6 T:DG5 3.3 74.2 1.0
O6 T:DG4 3.3 78.1 1.0
C6 T:DG4 3.5 75.3 1.0
C6 T:DG5 3.5 73.3 1.0
N9 T:DG4 4.2 76.2 1.0
C4 T:DG4 4.2 74.9 1.0
N9 T:DG5 4.2 73.6 1.0
C4 T:DG5 4.2 72.6 1.0
OP1 T:DG4 4.2 93.5 1.0
N4 T:DC6 4.4 68.0 1.0
C4 T:DC6 4.8 69.1 1.0
N1 T:DG4 4.9 78.3 1.0
N1 T:DG5 4.9 75.4 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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