Platinum in PDB 4n10: Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin

Enzymatic activity of Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin

All present enzymatic activity of Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin:
1.20.4.1;

Protein crystallography data

The structure of Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin, PDB code: 4n10 was solved by M.Yogavel, A.Sharma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	23.35 / 1.87
*Space group*	P 3₂ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	48.652, 48.652, 83.234, 90.00, 90.00, 120.00
*R / R_free (%)*	18 / 22.3

Other elements in 4n10:

The structure of Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin also contains other interesting chemical elements:

Chlorine

(Cl)

5 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin (pdb code 4n10). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 3 binding sites of Platinum where determined in the Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin, PDB code: 4n10:
Jump to Platinum binding site number: 1; 2; 3;

Platinum binding site 1 out of 3 in 4n10

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Platinum Binding Sites List in 4n10

Platinum binding site 1 out of 3 in the Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin

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 Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Pt203 b:36.8 occ:0.40	PT1	A:CPT203	0.0	36.8	0.4
	SD	A:MET59	2.2	35.7	1.0
	CL1	A:CPT203	2.3	38.3	0.4
	CE	A:MET59	2.9	47.8	1.0
	OE1	A:GLN63	3.1	32.2	0.5
	CG	A:MET59	3.2	41.0	1.0
	OE1	A:GLN63	3.2	31.8	0.5
	CB	A:MET59	4.1	30.9	1.0
	O	A:HOH354	4.2	45.4	1.0
	CD	A:GLN63	4.3	28.4	0.5
	O	A:HOH321	4.3	36.9	1.0
	CD	A:GLN63	4.4	28.6	0.5
	NE2	A:GLN63	4.8	34.0	0.5

Platinum binding site 2 out of 3 in 4n10

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Platinum Binding Sites List in 4n10

Platinum binding site 2 out of 3 in the Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin

Mono view

Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Pt204 b:31.6 occ:0.54	PT1	A:CPT204	0.0	31.6	0.5
	N1	A:CPT205	1.6	36.3	0.5
	PT1	A:CPT205	1.8	38.4	0.5
	ND1	A:HIS49	2.2	50.0	1.0
	CL2	A:CPT204	2.3	44.6	0.5
	CL1	A:CPT204	2.4	37.3	0.5
	N1	A:CPT204	2.6	35.8	0.5
	CG	A:HIS49	3.0	41.1	1.0
	CE1	A:HIS49	3.1	45.1	1.0
	CB	A:HIS49	3.4	34.9	1.0
	CL2	A:CPT205	3.8	43.5	0.5
	CL1	A:CPT205	3.9	40.4	0.5
	OD1	A:ASN19	3.9	30.7	1.0
	CD2	A:HIS49	4.0	50.5	1.0
	NE2	A:HIS49	4.0	46.8	1.0
	CA	A:HIS49	4.2	30.0	1.0
	O	A:HOH336	4.5	42.1	1.0
	CG	A:ASN19	4.6	35.4	1.0
	O	A:MET48	4.6	29.4	0.5
	O	A:HOH345	4.7	37.5	0.8
	ND2	A:ASN19	4.7	28.9	1.0
	O	A:HOH353	4.8	39.3	1.0
	O	A:MET48	4.8	29.4	0.5
	O	A:HOH347	4.9	36.2	0.9

Platinum binding site 3 out of 3 in 4n10

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Platinum Binding Sites List in 4n10

Platinum binding site 3 out of 3 in the Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin

Mono view

Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Crystal Structure of Plasmodium Falciparum Oxidized Glutaredoxin 1 (PFGRX1) Complexed with Cisplatin within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Pt205 b:38.4 occ:0.46	PT1	A:CPT205	0.0	38.4	0.5
	CL2	A:CPT204	0.5	44.6	0.5
	PT1	A:CPT204	1.8	31.6	0.5
	CL1	A:CPT205	2.3	40.4	0.5
	N1	A:CPT205	2.3	36.3	0.5
	ND1	A:HIS49	2.5	50.0	1.0
	CL2	A:CPT205	2.5	43.5	0.5
	CL1	A:CPT204	3.3	37.3	0.5
	CG	A:HIS49	3.3	41.1	1.0
	CB	A:HIS49	3.4	34.9	1.0
	CE1	A:HIS49	3.5	45.1	1.0
	CA	A:HIS49	3.5	30.0	1.0
	O	A:MET48	3.5	29.4	0.5
	O	A:MET48	3.6	29.4	0.5
	O	A:HOH347	3.8	36.2	0.9
	C	A:MET48	4.4	29.2	0.5
	N1	A:CPT204	4.4	35.8	0.5
	C	A:MET48	4.4	29.2	0.5
	N	A:HIS49	4.4	25.7	1.0
	O	A:HOH345	4.5	37.5	0.8
	CD2	A:HIS49	4.5	50.5	1.0
	N	A:VAL50	4.6	24.8	1.0
	C	A:HIS49	4.6	26.8	1.0
	NE2	A:HIS49	4.6	46.8	1.0
	OD1	A:ASN19	4.9	30.7	1.0

Reference:

M.Yogavel, T.Tripathi, S.Rahlfs, K.Becker, A.Sharma. Interaction of Cisplatin with Plasmodium Falciparum Glutaredoxin 1 To Be Published.

Page generated: Thu Oct 10 11:05:11 2024

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