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Ruthenium in PDB 4mj9: Lambda-[Ru(Tap)2(Dppz-10-Me)]2+ Bound to A Synthetic Dna Oligomer

Protein crystallography data

The structure of Lambda-[Ru(Tap)2(Dppz-10-Me)]2+ Bound to A Synthetic Dna Oligomer, PDB code: 4mj9 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) 21.14 / 0.97
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 42.270, 42.270, 39.670, 90.00, 90.00, 90.00
R / Rfree (%) 8.6 / 9.6

Other elements in 4mj9:

The structure of Lambda-[Ru(Tap)2(Dppz-10-Me)]2+ Bound to A Synthetic Dna Oligomer 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-10-Me)]2+ Bound to A Synthetic Dna Oligomer (pdb code 4mj9). 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-10-Me)]2+ Bound to A Synthetic Dna Oligomer, PDB code: 4mj9:

Ruthenium binding site 1 out of 1 in 4mj9

Go back to Ruthenium Binding Sites List in 4mj9
Ruthenium binding site 1 out of 1 in the Lambda-[Ru(Tap)2(Dppz-10-Me)]2+ Bound to A Synthetic Dna Oligomer


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-10-Me)]2+ Bound to A Synthetic Dna Oligomer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru101

b:9.6
occ:1.00
RU A:2J0101 0.0 9.6 1.0
N5 A:2J0101 2.0 11.2 1.0
N2 A:2J0101 2.0 10.4 1.0
N8 A:2J0101 2.0 10.4 1.0
N1 A:2J0101 2.0 10.2 1.0
N9 A:2J0101 2.0 9.2 1.0
N12 A:2J0101 2.0 9.5 1.0
C19 A:2J0101 2.8 11.5 1.0
C26 A:2J0101 2.8 11.3 1.0
C36 A:2J0101 2.9 9.0 1.0
C29 A:2J0101 2.9 9.2 1.0
C10 A:2J0101 2.9 10.1 1.0
C1 A:2J0101 2.9 10.1 1.0
C2 A:2J0101 3.1 11.2 1.0
C12 A:2J0101 3.1 10.6 1.0
C28 A:2J0101 3.1 11.1 1.0
C30 A:2J0101 3.1 9.9 1.0
C20 A:2J0101 3.1 12.5 1.0
C38 A:2J0101 3.1 10.2 1.0
H2 A:2J0101 3.2 11.4 1.0
H12 A:2J0101 3.2 10.8 1.0
H30 A:2J0101 3.3 9.8 1.0
H28 A:2J0101 3.3 11.1 1.0
H38 A:2J0101 3.3 10.2 1.0
H20 A:2J0101 3.3 12.7 1.0
C22 A:2J0101 4.2 13.1 1.0
C25 A:2J0101 4.2 12.1 1.0
C32 A:2J0101 4.2 9.3 1.0
C35 A:2J0101 4.2 9.3 1.0
C8 A:2J0101 4.2 11.0 1.0
C5 A:2J0101 4.2 11.1 1.0
C3 A:2J0101 4.4 12.8 1.0
C11 A:2J0101 4.4 11.4 1.0
C27 A:2J0101 4.4 12.1 1.0
C21 A:2J0101 4.4 14.4 1.0
C31 A:2J0101 4.4 10.4 1.0
C37 A:2J0101 4.4 10.1 1.0
O A:HOH290 4.5 11.6 1.0
C9 A:2J0101 4.8 11.6 1.0
N7 A:2J0101 4.8 13.0 1.0
N6 A:2J0101 4.8 14.3 1.0
O A:HOH262 4.8 30.2 1.0
C4 A:2J0101 4.8 12.3 1.0
N11 A:2J0101 4.9 9.8 1.0
N10 A:2J0101 4.9 10.1 1.0
H21 A:DG4 4.9 10.3 1.0

Reference:

J.P.Hall, H.Beer, K.Buchner, D.J.Cardin, C.J.Cardin. Perferred Orientation in An Angled Intercalation Site of A Methyl-Substituted Lambda-[Ru(Tap)2(Dppz)]2+ Complex Bound to D(Tcggcgccga)2 To Be Published.
Page generated: Wed Dec 16 02:08:22 2020

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