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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 / Rfree (%) 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

Go back to 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

Go back to 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

Go back to 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: Wed Dec 16 02:04:50 2020

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