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 / R_free (%)*	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

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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

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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

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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: Thu Oct 10 11:02:16 2024

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