Atomistry » Barium » PDB 2y5y-4e60 » 3u38
Atomistry »
  Barium »
    PDB 2y5y-4e60 »
      3u38 »

Barium in PDB 3u38: Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2

Protein crystallography data

The structure of Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2, PDB code: 3u38 was solved by C.J.Cardin, J.P.Hall, H.Niyazi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 14.86 / 2.13
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 52.560, 52.560, 32.430, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 23.2

Other elements in 3u38:

The structure of Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2 also contains other interesting chemical elements:

Ruthenium (Ru) 2 atoms

Barium Binding Sites:

The binding sites of Barium atom in the Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2 (pdb code 3u38). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total only one binding site of Barium was determined in the Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2, PDB code: 3u38:

Barium binding site 1 out of 1 in 3u38

Go back to Barium Binding Sites List in 3u38
Barium binding site 1 out of 1 in the Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Intercalation of Lambda-[Ru(Phen)2(Dppz)]2+ Into D(Ccggtaccgg)2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba103

b:37.2
occ:1.00
O A:HOH212 2.7 47.0 1.0
O A:HOH203 2.8 47.7 1.0
O6 A:DG4 2.8 40.9 1.0
O A:HOH202 2.8 38.0 1.0
O A:HOH201 2.9 47.3 1.0
O A:HOH205 2.9 35.1 1.0
N7 A:DG3 3.0 38.3 1.0
N7 A:DG4 3.0 41.9 1.0
O4 A:DT5 3.0 36.9 1.0
C6 A:DG4 3.5 33.9 1.0
C5 A:DG4 3.6 33.7 1.0
C8 A:DG3 3.7 35.5 1.0
C4 A:DT5 3.9 33.1 1.0
C5 A:DG3 4.1 31.1 1.0
C8 A:DG4 4.2 31.2 1.0
O6 A:DG3 4.4 32.2 1.0
C7 A:DT5 4.5 29.6 1.0
OP2 A:DG3 4.6 43.2 1.0
C5 A:DT5 4.6 32.0 1.0
C6 A:DG3 4.7 32.0 1.0
N3 A:DT5 4.8 33.2 1.0
N1 A:DG4 4.9 30.0 1.0
C4 A:DG4 4.9 32.5 1.0
N9 A:DG3 4.9 36.1 1.0

Reference:

H.Niyazi, J.P.Hall, K.O'sullivan, G.Winter, T.Sorensen, J.M.Kelly, C.J.Cardin. Crystal Structures of Lambda-[Ru(Phen)2DPPZ]2+ with Oligonucleotides Containing Ta/Ta and at/at Steps Show Two Intercalation Modes Nat Chem V. 4 621 2012.
ISSN: ISSN 1755-4349
PubMed: 22824893
DOI: 10.1038/NCHEM.1397
Page generated: Sat Dec 12 01:55:54 2020

Last articles

Zn in 7RE3
Zn in 7RDX
Zn in 7RDZ
Zn in 7RWM
Zn in 7PGU
Zn in 7PGR
Zn in 7PGT
Zn in 7PGS
Zn in 7SQE
Zn in 7RWK
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy