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Platinum in PDB 4gcd: Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2

Enzymatic activity of Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2

All present enzymatic activity of Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2:
3.2.1.17;

Protein crystallography data

The structure of Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2, PDB code: 4gcd was solved by J.R.Helliwell, S.W.M.Tanley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.74 / 2.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.863, 79.863, 37.802, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 24

Other elements in 4gcd:

The structure of Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2 also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Platinum Binding Sites:

The binding sites of Platinum atom in the Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2 (pdb code 4gcd). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 2 binding sites of Platinum where determined in the Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2, PDB code: 4gcd:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in 4gcd

Go back to Platinum Binding Sites List in 4gcd
Platinum binding site 1 out of 2 in the Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt204

b:64.2
occ:0.66
PT1 A:CPT204 0.0 64.2 0.7
N2 A:CPT204 2.0 58.9 0.7
CL2 A:CPT204 2.4 45.6 0.7
ND1 A:HIS15 2.6 49.2 1.0
CE1 A:HIS15 3.3 50.1 1.0
CG A:HIS15 3.5 46.2 1.0
CA A:HIS15 3.7 43.0 1.0
CB A:HIS15 4.0 43.6 1.0
NE2 A:HIS15 4.3 50.0 1.0
O A:HIS15 4.4 40.1 1.0
C A:HIS15 4.5 41.4 1.0
CD2 A:HIS15 4.5 47.8 1.0
O A:ARG14 4.5 45.0 1.0
CG2 A:THR89 4.6 33.0 1.0
N A:HIS15 4.7 44.8 1.0
OD1 A:ASN93 5.0 36.2 1.0

Platinum binding site 2 out of 2 in 4gcd

Go back to Platinum Binding Sites List in 4gcd
Platinum binding site 2 out of 2 in the Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Room Temperature X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, Dataset 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt205

b:64.5
occ:0.55
PT1 A:CPT205 0.0 64.5 0.6
N2 A:CPT205 2.0 60.3 0.6
N1 A:CPT205 2.0 58.2 0.6
NE2 A:HIS15 2.6 50.0 1.0
NH1 A:ARG14 3.3 63.9 1.0
CD2 A:HIS15 3.3 47.8 1.0
CE1 A:HIS15 3.6 50.1 1.0
NH2 A:ARG14 4.1 64.8 1.0
CZ A:ARG14 4.2 65.5 1.0
OD2 A:ASP87 4.2 41.0 1.0
CG A:HIS15 4.5 46.2 1.0
ND1 A:HIS15 4.7 49.2 1.0
OG1 A:THR89 4.8 33.4 1.0
CB A:ALA11 4.9 37.2 1.0
CG1 A:ILE88 4.9 29.1 1.0

Reference:

J.R.Helliwell, S.W.Tanley. The Crystal Structure Analysis of the Relative Binding of Cisplatin and Carboplatin in A Mixture with Histidine in A Protein Studied at 100 and 300 K with Repeated X-Ray Irradiation. Acta Crystallogr.,Sect.D V. 69 121 2013.
ISSN: ISSN 0907-4449
PubMed: 23275170
DOI: 10.1107/S090744491204423X
Page generated: Wed Dec 16 02:04:45 2020

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