Sodium in PDB 1dcw: Structure of A Four-Way Junction in An Inverted Repeat Sequence.

The structure of Structure of A Four-Way Junction in An Inverted Repeat Sequence., PDB code: 1dcw was solved by B.F.Eichman, J.M.Vargason, B.H.M.Mooers, P.S.Ho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	66.500, 23.500, 76.900, 90.00, 114.80, 90.00
R / Rfree (%)	23 / 31.7

The binding sites of Sodium atom in the Structure of A Four-Way Junction in An Inverted Repeat Sequence. (pdb code 1dcw). 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 Structure of A Four-Way Junction in An Inverted Repeat Sequence., PDB code: 1dcw:

Sodium binding site 1 out of 1 in the Structure of A Four-Way Junction in An Inverted Repeat Sequence.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of A Four-Way Junction in An Inverted Repeat Sequence. within 5.0Å range: probe atom residue distance (Å) B Occ D:Na11 b:18.6 occ:1.00 OP2 D:DA6 2.5 35.8 1.0 OP2 B:DA6 2.5 35.8 1.0 C8 B:DA6 3.1 17.9 1.0 C8 D:DA6 3.4 11.5 1.0 C2' B:DA6 3.4 28.2 1.0 C2' D:DA6 3.4 29.2 1.0 O5' D:DA6 3.5 35.6 1.0 P D:DA6 3.5 37.3 1.0 O5' B:DA6 3.5 32.7 1.0 P B:DA6 3.6 33.7 1.0 N9 B:DA6 3.9 26.0 1.0 N7 B:DA6 4.0 22.1 1.0 N9 D:DA6 4.1 20.2 1.0 C1' B:DA6 4.2 22.9 1.0 C1' D:DA6 4.3 21.5 1.0 O B:HOH93 4.3 43.8 1.0 C3' D:DA6 4.3 32.7 1.0 N7 D:DA6 4.4 16.1 1.0 C3' B:DA6 4.4 33.5 1.0 OP1 D:DA6 4.5 40.7 1.0 O3' D:DT5 4.6 37.4 1.0 C2' B:DT5 4.6 33.3 1.0 O3' B:DT5 4.6 38.8 1.0 OP1 B:DA6 4.7 39.0 1.0 C2' D:DT5 4.7 32.7 1.0 C5' D:DA6 4.7 31.2 1.0 C5 D:DC7 4.7 25.0 1.0 O4' B:DA6 4.7 30.1 1.0 C5' B:DA6 4.8 30.2 1.0 O4' D:DA6 4.9 26.0 1.0 C4' D:DA6 4.9 30.1 1.0 C4' B:DA6 4.9 31.1 1.0 C5 B:DC7 5.0 24.9 1.0

B.F.Eichman, J.M.Vargason, B.H.Mooers, P.S.Ho. The Holliday Junction in An Inverted Repeat Dna Sequence: Sequence Effects on the Structure of Four-Way Junctions. Proc.Natl.Acad.Sci.Usa V. 97 3971 2000.
ISSN: ISSN 0027-8424
PubMed: 10760268
DOI: 10.1073/PNAS.97.8.3971