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Sodium in PDB 1zf7: Gac Duplex B-Dna

Protein crystallography data

The structure of Gac Duplex B-Dna, PDB code: 1zf7 was solved by F.A.Hays, A.T.Teegarden, Z.J.R.Jones, M.Harms, D.Raup, J.Watson, E.Cavaliere, P.S.Ho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 16.25 / 1.05
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 53.440, 53.440, 43.870, 90.00, 90.00, 120.00
R / Rfree (%) 27.6 / 28.8

Other elements in 1zf7:

The structure of Gac Duplex B-Dna also contains other interesting chemical elements:

Calcium (Ca) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Gac Duplex B-Dna (pdb code 1zf7). 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 Gac Duplex B-Dna, PDB code: 1zf7:

Sodium binding site 1 out of 1 in 1zf7

Go back to Sodium Binding Sites List in 1zf7
Sodium binding site 1 out of 1 in the Gac Duplex B-Dna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Gac Duplex B-Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na24

b:1.0
occ:1.00
O A:HOH45 2.6 7.7 1.0
C5 A:DC5 4.3 3.6 1.0
C6 A:DC5 4.5 4.1 1.0
N7 A:DG6 4.7 3.8 1.0
OP2 A:DC5 4.7 6.6 1.0
O6 A:DG6 4.9 2.8 1.0

Reference:

F.A.Hays, A.Teegarden, Z.J.Jones, M.Harms, D.Raup, J.Watson, E.Cavaliere, P.S.Ho. How Sequence Defines Structure: A Crystallographic Map of Dna Structure and Conformation. Proc.Natl.Acad.Sci.Usa V. 102 7157 2005.
ISSN: ISSN 0027-8424
PubMed: 15870206
DOI: 10.1073/PNAS.0409455102
Page generated: Tue Dec 15 05:44:28 2020

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