Atomistry » Sodium » PDB 6qtk-6r7j » 6r6d
Atomistry »
  Sodium »
    PDB 6qtk-6r7j »
      6r6d »

Sodium in PDB 6r6d: [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2

Protein crystallography data

The structure of [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2, PDB code: 6r6d was solved by K.T.Mcquaid, 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) 33.03 / 1.84
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 46.704, 46.704, 34.308, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 18.7

Other elements in 6r6d:

The structure of [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2 also contains other interesting chemical elements:

Ruthenium (Ru) 1 atom
Barium (Ba) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2 (pdb code 6r6d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2, PDB code: 6r6d:

Sodium binding site 1 out of 1 in 6r6d

Go back to Sodium Binding Sites List in 6r6d
Sodium binding site 1 out of 1 in the [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na103

b:36.3
occ:1.00
O A:HOH210 3.1 57.2 1.0
N4 A:DC5 3.4 40.4 1.0
O A:HOH208 3.4 39.0 1.0
C8 A:DG4 3.5 40.8 1.0
C5 A:DC5 3.7 39.2 1.0
C2' A:DG4 3.8 41.4 1.0
N7 A:DG4 3.8 35.0 1.0
N9 A:DG4 4.0 37.2 1.0
C4 A:DC5 4.0 38.9 1.0
C1' A:DG4 4.5 35.6 1.0
C5 A:DG4 4.5 34.1 1.0
C4 A:DG4 4.6 35.9 1.0
O6 A:DG6 4.9 39.9 1.0
O A:HOH203 4.9 41.2 1.0
O A:HOH211 4.9 44.4 1.0
C6 A:DC5 5.0 38.6 1.0

Reference:

K.T.Mcquaid, J.P.Hall, C.J.Cardin. Structure of [Ru(Tap)2(11,12-CN2-Dppz)]2+ Bound to D(Tcggcgccga)2 To Be Published.
Page generated: Tue Dec 15 12:51:36 2020

Last articles

Zn in 8PFC
Zn in 8SF0
Zn in 8SOJ
Zn in 8SOK
Zn in 8SYI
Zn in 8SLG
Zn in 8SEX
Zn in 8SEZ
Zn in 8SJG
Zn in 8SEY
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy