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Sodium in the structure of Human Thrombin - Inhibitor Complex (pdb 4ayv)

The binding sites of Sodium atom in the structure of Human Thrombin - Inhibitor Complex (pdb code 4ayv). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 4ayv structure was solved by D.W.BANNER, A.D'ARCY, F.K.WINKLER, K.HILPERT, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)24.5-2.8
Space groupP43212
a (A)90.800
b (A)90.800
c (A)132.500
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)14.05
Rfree (%)19.209

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 4ayv

Sodium binding site 1 out of 1 in 4ayv
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 4ayv
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 4ayv. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Tyr190, B: Asp232, B: Arg233, B: Asp234, B: Gly235, B: Lys236, B: Tyr237, B: Hoh2042, B: Hoh2043, B: Hoh2044, B: Hoh2046, B: Hoh2050,

conact list:

AtomAtomDistance (A)
NaO B:Tyr1904.06
NaO B:Asp2324.93
NaC B:Asp2324.40
NaOD1 B:Asp2324.91
NaCA B:Asp2324.65
NaO B:Arg2332.56
NaN B:Arg2334.17
NaC B:Arg2333.70
NaCA B:Arg2334.56
NaN B:Asp2344.57
NaC B:Asp2344.83
NaCA B:Asp2344.63
NaN B:Gly2354.44
NaC B:Gly2354.85
NaO B:Lys2362.11
NaN B:Lys2363.73
NaCB B:Lys2364.41
NaC B:Lys2363.21
NaCA B:Lys2363.95
NaN B:Tyr2374.24
NaCD1 B:Tyr2374.81
NaCA B:Tyr2374.53
NaO B:Hoh20424.26
NaO B:Hoh20432.33
NaO B:Hoh20443.05
NaO B:Hoh20462.55
NaO B:Hoh20502.19

interactive model:

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