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Magnesium in PDB 6f3c: The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer

Protein crystallography data

The structure of The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer, PDB code: 6f3c was solved by M.Ferraroni, C.Bazzicalupi, P.Gratteri, F.Papi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.00 / 2.30
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 30.090, 30.090, 116.990, 90.00, 90.00, 120.00
R / Rfree (%) 25.7 / 29.2

Other elements in 6f3c:

The structure of The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer also contains other interesting chemical elements:

Platinum (Pt) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer (pdb code 6f3c). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer, PDB code: 6f3c:

Magnesium binding site 1 out of 1 in 6f3c

Go back to Magnesium Binding Sites List in 6f3c
Magnesium binding site 1 out of 1 in the The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Cytotoxic [Pt(H2BAPBPY)] Platinum Complex Interacting with the Cgtacg Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg101

b:37.3
occ:1.00
OP1 D:DG12 2.0 49.4 1.0
O B:HOH202 2.2 81.9 1.0
OP1 B:DG12 2.6 32.3 1.0
P D:DG12 3.5 55.7 1.0
O3' D:DC11 4.0 61.2 1.0
P B:DG12 4.1 40.3 1.0
O5' D:DG12 4.3 58.0 1.0
O B:HOH204 4.3 80.3 0.5
OP2 D:DG12 4.5 49.1 1.0
C5' B:DG12 4.6 43.9 1.0
O3' B:DC11 4.8 47.4 1.0
O5' B:DG12 4.8 43.5 1.0
OP2 B:DG12 4.9 23.8 1.0

Reference:

V.H.S.Van Rixel, A.Busemann, M.F.Wissingh, S.L.Hopkins, B.Siewert, C.Van De Griend, M.A.Siegler, T.Marzo, F.Papi, M.Ferraroni, P.Gratteri, C.Bazzicalupi, L.Messori, S.Bonnet. Induction of A Four-Way Junction Structure in the Dna Palindromic Hexanucleotide 5'-D(Cgtacg)-3' By A Mononuclear Platinum Complex. Angew.Chem.Int.Ed.Engl. V. 58 9378 2019.
ISSN: ESSN 1521-3773
PubMed: 31046177
DOI: 10.1002/ANIE.201814532
Page generated: Mon Dec 14 22:40:05 2020

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