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Ruthenium in PDB 3qf8: X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution

Protein crystallography data

The structure of X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution, PDB code: 3qf8 was solved by C.J.Cardin, J.P.Hall, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 13.96 / 1.73
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 42.239, 42.239, 39.379, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 23.3

Other elements in 3qf8:

The structure of X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution also contains other interesting chemical elements:

Barium (Ba) 1 atom

Ruthenium Binding Sites:

The binding sites of Ruthenium atom in the X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution (pdb code 3qf8). 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 X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution, PDB code: 3qf8:

Ruthenium binding site 1 out of 1 in 3qf8

Go back to Ruthenium Binding Sites List in 3qf8
Ruthenium binding site 1 out of 1 in the X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 1 of X-Ray Crystal Structure of the Ruthenium Complex [Ru(Tap)2(Dppz)]2+ Bound to D(Tcggcgccga) at Medium Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru11

b:17.8
occ:1.00
RU A:RKL11 0.0 17.8 1.0
N9 A:RKL11 1.9 15.6 1.0
N8 A:RKL11 2.0 14.5 1.0
N2 A:RKL11 2.0 18.3 1.0
N5 A:RKL11 2.0 18.9 1.0
N1 A:RKL11 2.1 19.4 1.0
N12 A:RKL11 2.1 16.6 1.0
C26 A:RKL11 2.8 14.3 1.0
C19 A:RKL11 2.8 15.3 1.0
C29 A:RKL11 2.8 12.9 1.0
C36 A:RKL11 2.8 15.6 1.0
C1 A:RKL11 2.9 12.8 1.0
C10 A:RKL11 2.9 12.9 1.0
C30 A:RKL11 3.0 13.8 1.0
C28 A:RKL11 3.1 13.2 1.0
C2 A:RKL11 3.1 12.4 1.0
C20 A:RKL11 3.1 19.9 1.0
C12 A:RKL11 3.2 17.2 1.0
C38 A:RKL11 3.2 12.5 1.0
C25 A:RKL11 4.2 15.6 1.0
C22 A:RKL11 4.2 16.5 1.0
C5 A:RKL11 4.2 17.6 1.0
C35 A:RKL11 4.2 14.0 1.0
C8 A:RKL11 4.3 13.7 1.0
C32 A:RKL11 4.3 10.1 1.0
C31 A:RKL11 4.3 13.5 1.0
C3 A:RKL11 4.4 17.6 1.0
C27 A:RKL11 4.4 17.5 1.0
C37 A:RKL11 4.4 14.9 1.0
C21 A:RKL11 4.4 15.0 1.0
O A:HOH13 4.5 19.3 1.0
C11 A:RKL11 4.5 15.3 1.0
N2 A:DG9 4.6 15.9 1.0
N7 A:RKL11 4.8 14.6 1.0
N11 A:RKL11 4.8 12.8 1.0
C4 A:RKL11 4.8 17.1 1.0
N6 A:RKL11 4.9 16.6 1.0
N10 A:RKL11 4.9 13.1 1.0
C9 A:RKL11 5.0 10.4 1.0

Reference:

J.P.Hall, K.O'sullivan, A.Naseer, J.A.Smith, J.M.Kelly, C.J.Cardin. Structure Determination of An Intercalating Ruthenium Dipyridophenazine Complex Which Kinks Dna By Semiintercalation of A Tetraazaphenanthrene Ligand. Proc.Natl.Acad.Sci.Usa V. 108 17610 2011.
ISSN: ISSN 0027-8424
PubMed: 21969542
DOI: 10.1073/PNAS.1108685108
Page generated: Wed Dec 16 02:08:08 2020

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