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Ruthenium in PDB 4e8s: Lambda-[Ru(Tap)2(Dppz{ME2}2)]2+ Bound to Tcggcgccga at High Resolution

Protein crystallography data

The structure of Lambda-[Ru(Tap)2(Dppz{ME2}2)]2+ Bound to Tcggcgccga at High Resolution, PDB code: 4e8s 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) 29.98 / 1.24
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 42.400, 42.400, 39.670, 90.00, 90.00, 90.00
R / Rfree (%) 10.3 / 12.9

Other elements in 4e8s:

The structure of Lambda-[Ru(Tap)2(Dppz{ME2}2)]2+ Bound to Tcggcgccga at High Resolution also contains other interesting chemical elements:

Barium (Ba) 1 atom
Chlorine (Cl) 1 atom

Ruthenium Binding Sites:

The binding sites of Ruthenium atom in the Lambda-[Ru(Tap)2(Dppz{ME2}2)]2+ Bound to Tcggcgccga at High Resolution (pdb code 4e8s). 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{ME2}2)]2+ Bound to Tcggcgccga at High Resolution, PDB code: 4e8s:

Ruthenium binding site 1 out of 1 in 4e8s

Go back to Ruthenium Binding Sites List in 4e8s
Ruthenium binding site 1 out of 1 in the Lambda-[Ru(Tap)2(Dppz{ME2}2)]2+ Bound to Tcggcgccga at High Resolution


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{ME2}2)]2+ Bound to Tcggcgccga at High Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru102

b:10.9
occ:1.00
RU A:RML102 0.0 10.9 1.0
N5 A:RML102 2.0 11.7 1.0
N8 A:RML102 2.0 11.3 1.0
N9 A:RML102 2.0 9.7 1.0
N1 A:RML102 2.0 10.6 1.0
N12 A:RML102 2.1 9.6 1.0
N2 A:RML102 2.1 11.0 1.0
C19 A:RML102 2.8 14.7 1.0
C26 A:RML102 2.8 12.8 1.0
C36 A:RML102 2.8 10.1 1.0
C29 A:RML102 2.8 10.2 1.0
C1 A:RML102 2.9 12.0 1.0
C10 A:RML102 2.9 11.3 1.0
C12 A:RML102 3.0 11.2 1.0
C30 A:RML102 3.1 10.8 1.0
C28 A:RML102 3.1 12.3 1.0
C38 A:RML102 3.1 10.2 1.0
C2 A:RML102 3.1 12.2 1.0
C20 A:RML102 3.1 14.8 1.0
C22 A:RML102 4.2 15.8 1.0
C25 A:RML102 4.2 13.4 1.0
C35 A:RML102 4.2 9.3 1.0
C32 A:RML102 4.2 10.4 1.0
C8 A:RML102 4.2 13.0 1.0
C5 A:RML102 4.3 12.1 1.0
C11 A:RML102 4.3 12.2 1.0
C31 A:RML102 4.4 11.3 1.0
C3 A:RML102 4.4 13.2 1.0
C37 A:RML102 4.4 11.1 1.0
C27 A:RML102 4.4 13.8 1.0
C21 A:RML102 4.4 16.4 1.0
O2 A:DC2 4.8 12.3 1.0
C9 A:RML102 4.8 13.1 1.0
N7 A:RML102 4.8 13.4 1.0
N11 A:RML102 4.8 10.7 1.0
O A:HOH264 4.8 37.0 1.0
N6 A:RML102 4.8 15.8 1.0
C4 A:RML102 4.8 12.5 1.0
N10 A:RML102 4.9 10.6 1.0

Reference:

J.P.Hall, H.Beer, K.Buchner, D.J.Cardin, C.J.Cardin. The Structural Effect of Methyl Substitution on the Binding of Polypyridyl Ru Dppz Complexes to Dna Organometallics 2015.
ISSN: ISSN 0276-7333
DOI: 10.1021/OM501208X
Page generated: Wed Dec 16 02:08:11 2020

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