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Ruthenium in PDB 5et2: Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa)

Protein crystallography data

The structure of Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa), PDB code: 5et2 was solved by J.P.Hall, C.J.Cardin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.83 / 1.39
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 42.380, 42.380, 39.300, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 18.5

Other elements in 5et2:

The structure of Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa) also contains other interesting chemical elements:

Barium (Ba) 1 atom

Ruthenium Binding Sites:

The binding sites of Ruthenium atom in the Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa) (pdb code 5et2). This binding sites where shown within 5.0 Angstroms radius around Ruthenium atom.
In total only one binding site of Ruthenium was determined in the Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa), PDB code: 5et2:

Ruthenium binding site 1 out of 1 in 5et2

Go back to Ruthenium Binding Sites List in 5et2
Ruthenium binding site 1 out of 1 in the Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa)


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 1 of Lambda-Ru(Tap)2(Dppz)]2+ Bound to D(Ttggcgccaa) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru101

b:15.4
occ:1.00
RU A:RKL101 0.0 15.4 1.0
N5 A:RKL101 2.1 14.9 1.0
N12 A:RKL101 2.1 17.1 1.0
N2 A:RKL101 2.1 14.0 1.0
N9 A:RKL101 2.1 17.5 1.0
N8 A:RKL101 2.1 13.9 1.0
N1 A:RKL101 2.1 15.7 1.0
C29 A:RKL101 2.8 18.1 1.0
C36 A:RKL101 2.8 17.9 1.0
C26 A:RKL101 2.8 13.0 1.0
C19 A:RKL101 2.8 13.9 1.0
C1 A:RKL101 2.8 15.0 1.0
C10 A:RKL101 2.8 15.3 1.0
C12 A:RKL101 3.1 15.8 1.0
C2 A:RKL101 3.1 14.7 1.0
C20 A:RKL101 3.1 14.3 1.0
C38 A:RKL101 3.1 17.5 1.0
C28 A:RKL101 3.1 14.4 1.0
C30 A:RKL101 3.2 18.1 1.0
H12 A:RKL101 3.2 16.7 1.0
H2 A:RKL101 3.2 19.6 1.0
H20 A:RKL101 3.3 14.8 1.0
H28 A:RKL101 3.3 14.7 1.0
H38 A:RKL101 3.3 18.0 1.0
H30 A:RKL101 3.4 18.4 1.0
C32 A:RKL101 4.1 18.7 1.0
C35 A:RKL101 4.1 18.2 1.0
C25 A:RKL101 4.2 12.6 1.0
C22 A:RKL101 4.2 14.2 1.0
C5 A:RKL101 4.2 15.6 1.0
C8 A:RKL101 4.2 16.5 1.0
O A:HOH236 4.3 19.4 1.0
C21 A:RKL101 4.3 14.9 1.0
C31 A:RKL101 4.4 18.4 1.0
C11 A:RKL101 4.4 17.1 1.0
C3 A:RKL101 4.4 15.6 1.0
C37 A:RKL101 4.4 18.0 1.0
C27 A:RKL101 4.4 15.2 1.0
O2 A:DT2 4.7 16.0 1.0
O A:HOH246 4.7 22.6 0.5
N10 A:RKL101 4.7 18.5 1.0
N11 A:RKL101 4.8 18.3 1.0
N6 A:RKL101 4.8 14.4 1.0
N7 A:RKL101 4.8 13.9 1.0
C4 A:RKL101 4.8 15.9 1.0
C9 A:RKL101 4.8 16.4 1.0

Reference:

P.M.Keane, J.P.Hall, F.E.Poynton, B.C.Poulsen, S.P.Gurung, I.P.Clark, I.V.Sazanovich, M.Towrie, T.Gunnlaugsson, S.J.Quinn, C.J.Cardin, J.M.Kelly. Inosine Can Increase Dna'S Susceptibility to Photo-Oxidation By A Ru(II) Complex Due to Structural Change in the Minor Groove. Chemistry V. 23 10344 2017.
ISSN: ISSN 1521-3765
PubMed: 28543779
DOI: 10.1002/CHEM.201701447
Page generated: Wed Dec 16 02:08:27 2020

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