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Platinum in PDB 1a2e: Crystal Structure of A Double-Stranded Dna Decamer Containing A Cisplatin Interstrand Cross-Link Adduct

Protein crystallography data

The structure of Crystal Structure of A Double-Stranded Dna Decamer Containing A Cisplatin Interstrand Cross-Link Adduct, PDB code: 1a2e was solved by F.Coste, C.Zelwer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.63
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 42.890, 29.980, 46.570, 90.00, 95.98, 90.00
R / Rfree (%) 16.9 / 20.3

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of A Double-Stranded Dna Decamer Containing A Cisplatin Interstrand Cross-Link Adduct (pdb code 1a2e). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total only one binding site of Platinum was determined in the Crystal Structure of A Double-Stranded Dna Decamer Containing A Cisplatin Interstrand Cross-Link Adduct, PDB code: 1a2e:

Platinum binding site 1 out of 1 in 1a2e

Go back to Platinum Binding Sites List in 1a2e
Platinum binding site 1 out of 1 in the Crystal Structure of A Double-Stranded Dna Decamer Containing A Cisplatin Interstrand Cross-Link Adduct


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of A Double-Stranded Dna Decamer Containing A Cisplatin Interstrand Cross-Link Adduct within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt101

b:12.9
occ:1.00
PT1 A:CPT101 0.0 12.9 1.0
N2 A:CPT101 2.0 14.3 1.0
N7 B:DG15 2.0 13.5 1.0
N7 A:DG5 2.0 12.7 1.0
N1 A:CPT101 2.0 15.9 1.0
C8 A:DG5 2.9 15.0 1.0
C8 B:DG15 2.9 12.0 1.0
C5 B:DG15 3.1 10.6 1.0
C5 A:DG5 3.1 12.7 1.0
O6 B:DG15 3.5 15.2 1.0
O A:HOH107 3.6 23.7 1.0
O B:HOH21 3.6 27.0 1.0
C6 B:DG15 3.7 11.1 1.0
O6 A:DG5 3.7 13.7 1.0
C6 A:DG5 3.8 13.9 1.0
O A:HOH126 3.8 21.3 1.0
O A:HOH106 4.0 24.1 1.0
N9 A:DG5 4.1 14.7 1.0
N9 B:DG15 4.1 14.0 1.0
O A:HOH111 4.1 27.8 1.0
O A:HOH135 4.2 48.5 1.0
C4 B:DG15 4.2 16.8 1.0
C4 A:DG5 4.2 12.0 1.0
O B:HOH25 4.2 24.7 1.0
O A:HOH151 4.3 29.9 1.0
O2 A:DT7 4.4 14.0 1.0
C2 B:DA14 4.5 13.4 1.0
N2 B:DG17 4.7 16.6 1.0
N3 B:DA14 4.7 15.2 1.0
O A:HOH149 4.7 42.1 1.0

Reference:

F.Coste, J.M.Malinge, L.Serre, W.Shepard, M.Roth, M.Leng, C.Zelwer. Crystal Structure of A Double-Stranded Dna Containing A Cisplatin Interstrand Cross-Link at 1.63 A Resolution: Hydration at the Platinated Site. Nucleic Acids Res. V. 27 1837 1999.
ISSN: ISSN 0305-1048
PubMed: 10101191
DOI: 10.1093/NAR/27.8.1837
Page generated: Wed Dec 16 02:03:34 2020

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