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Platinum in PDB 4gcb: 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl

Enzymatic activity of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl

All present enzymatic activity of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl:
3.2.1.17;

Protein crystallography data

The structure of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, PDB code: 4gcb 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) 55.71 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.780, 78.780, 36.987, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 21

Other elements in 4gcb:

The structure of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl also contains other interesting chemical elements:

Chlorine (Cl) 9 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl (pdb code 4gcb). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 3 binding sites of Platinum where determined in the 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl, PDB code: 4gcb:
Jump to Platinum binding site number: 1; 2; 3;

Platinum binding site 1 out of 3 in 4gcb

Go back to Platinum Binding Sites List in 4gcb
Platinum binding site 1 out of 3 in the 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt208

b:20.7
occ:0.50
PT1 A:CPT208 0.0 20.7 0.5
N1 A:CPT208 2.0 33.9 1.0
ND1 A:HIS15 2.1 22.6 1.0
CL1 A:CPT208 2.4 43.5 1.0
CL2 A:CPT208 2.5 37.5 1.0
CE1 A:HIS15 2.9 23.5 1.0
CG A:HIS15 3.1 20.5 1.0
CB A:HIS15 3.6 19.5 1.0
CA A:HIS15 3.6 18.4 1.0
NE2 A:HIS15 4.1 22.0 1.0
PT A:PT213 4.1 35.4 0.2
CD2 A:HIS15 4.2 19.7 1.0
O A:ARG14 4.3 25.5 1.0
OG1 A:THR89 4.3 14.7 1.0
O A:HIS15 4.4 16.7 1.0
C A:HIS15 4.4 17.3 1.0
CG2 A:THR89 4.5 16.2 1.0
N A:HIS15 4.7 19.0 1.0
C A:ARG14 4.9 21.0 1.0
CB A:THR89 4.9 13.8 1.0

Platinum binding site 2 out of 3 in 4gcb

Go back to Platinum Binding Sites List in 4gcb
Platinum binding site 2 out of 3 in the 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt209

b:43.5
occ:0.47
PT1 A:CPT209 0.0 43.5 0.5
N2 A:CPT209 2.0 37.3 1.0
NE2 A:HIS15 2.2 22.0 1.0
CL A:CL212 2.4 28.5 1.0
NH1 A:ARG14 3.0 33.1 1.0
CD2 A:HIS15 3.1 19.7 1.0
CE1 A:HIS15 3.3 23.5 1.0
PT A:PT213 3.8 35.4 0.2
CZ A:ARG14 4.0 31.8 1.0
CG A:HIS15 4.3 20.5 1.0
OD1 A:ASP87 4.3 18.0 1.0
CD A:ARG14 4.4 31.7 1.0
ND1 A:HIS15 4.4 22.6 1.0
NE A:ARG14 4.6 35.8 1.0
CB A:ALA11 4.7 12.5 1.0
CG1 A:ILE88 4.8 11.9 1.0
NH2 A:ARG14 4.9 28.9 1.0
OG1 A:THR89 4.9 14.7 1.0
O A:ALA11 4.9 14.5 1.0
CA A:ALA11 5.0 13.5 1.0

Platinum binding site 3 out of 3 in 4gcb

Go back to Platinum Binding Sites List in 4gcb
Platinum binding site 3 out of 3 in the 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of 100K X-Ray Diffraction Study of A 6-Fold Molar Excess of A Cisplatin/Carboplatin Mixture Binding to Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt213

b:35.4
occ:0.22
NH2 A:ARG14 2.4 28.9 1.0
CE1 A:HIS15 2.7 23.5 1.0
NH1 A:ARG14 2.8 33.1 1.0
CZ A:ARG14 2.8 31.8 1.0
NE2 A:HIS15 3.3 22.0 1.0
OG1 A:THR89 3.5 14.7 1.0
ND1 A:HIS15 3.7 22.6 1.0
PT1 A:CPT209 3.8 43.5 0.5
NE A:ARG14 3.9 35.8 1.0
N2 A:CPT209 4.1 37.3 1.0
PT1 A:CPT208 4.1 20.7 0.5
CD2 A:HIS15 4.4 19.7 1.0
OD1 A:ASP87 4.5 18.0 1.0
CG A:HIS15 4.7 20.5 1.0
OD2 A:ASP87 4.9 24.6 1.0
N1 A:CPT208 4.9 33.9 1.0
CB A:THR89 4.9 13.8 1.0
CD A:ARG14 4.9 31.7 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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