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Platinum in PDB 5ole: X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound

Enzymatic activity of X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound

All present enzymatic activity of X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound:
3.2.1.17;

Protein crystallography data

The structure of X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound, PDB code: 5ole was solved by G.Ferraro, A.Merlino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 54.72 / 1.78
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.387, 77.387, 37.626, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 23.8

Platinum Binding Sites:

The binding sites of Platinum atom in the X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound (pdb code 5ole). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 2 binding sites of Platinum where determined in the X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound, PDB code: 5ole:
Jump to Platinum binding site number: 1; 2;

Platinum binding site 1 out of 2 in 5ole

Go back to Platinum Binding Sites List in 5ole
Platinum binding site 1 out of 2 in the X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt211

b:34.5
occ:0.75
ND1 A:HIS15 2.2 35.3 1.0
S A:DMS209 2.6 14.0 0.8
S A:DMS210 2.6 8.9 0.8
CG A:HIS15 3.2 34.0 1.0
CE1 A:HIS15 3.2 37.4 1.0
CB A:HIS15 3.4 35.0 1.0
CA A:HIS15 3.5 36.8 1.0
O A:HIS15 3.9 42.3 1.0
C A:HIS15 4.1 39.3 1.0
CD2 A:HIS15 4.3 36.1 1.0
NE2 A:HIS15 4.3 37.7 1.0
O A:HOH351 4.4 43.9 1.0
N A:HIS15 4.6 36.7 1.0
NZ A:LYS96 4.7 35.9 1.0
O A:ARG14 4.8 33.0 1.0
CG2 A:THR89 5.0 40.4 1.0

Platinum binding site 2 out of 2 in 5ole

Go back to Platinum Binding Sites List in 5ole
Platinum binding site 2 out of 2 in the X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of X-Ray Structure of the Adduct Formed Upon Reaction of Hen Egg White Lysozyme with A Tetranuclear Pt-Thiosemicarbazone Compound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt212

b:46.0
occ:0.45
NH2 A:ARG14 2.2 45.9 1.0
O A:HOH377 2.4 33.9 0.5
S A:DMS208 2.6 22.1 0.5
NE2 A:HIS15 3.0 37.7 1.0
CZ A:ARG14 3.1 41.8 1.0
NE A:ARG14 3.3 41.5 1.0
CD2 A:HIS15 3.8 36.1 1.0
CE1 A:HIS15 4.0 37.4 1.0
OD1 A:ASP87 4.1 44.9 1.0
NH1 A:ARG14 4.3 37.4 1.0
CB A:ALA11 4.6 29.6 1.0
CD A:ARG14 4.7 40.8 1.0
OG1 A:THR89 4.8 35.5 1.0
O A:HOH385 4.8 46.1 1.0
CG1 A:ILE88 4.8 32.4 1.0
N A:ILE88 4.8 32.9 1.0
CG A:ASP87 5.0 49.0 1.0

Reference:

T.Marzo, F.Navas, D.Cirri, A.Merlino, G.Ferraro, L.Messori, A.G.Quiroga. Reactions of A Tetranuclear Pt-Thiosemicarbazone Complex with Model Proteins. J. Inorg. Biochem. V. 181 11 2018.
ISSN: ISSN 1873-3344
PubMed: 29353085
DOI: 10.1016/J.JINORGBIO.2018.01.002
Page generated: Wed Dec 16 02:05:25 2020

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