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Sodium in the structure of Thrombin With 3-Cycle No F (pdb 2v3h)

The binding sites of Sodium atom in the structure of Thrombin With 3-Cycle No F (pdb code 2v3h). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 2v3h structure was solved by D.W.BANNER, U.OBST, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)71.2-1.8
Space groupC121
a (A)70.440
b (A)71.780
c (A)72.410
alpha (°)90.00
beta (°)100.40
gamma (°)90.00
Rfactor (%)17.3
Rfree (%)20.7

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 2v3h

Sodium binding site 1 out of 1 in 2v3h
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 2v3h
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2v3h. 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: H: Tyr184A, H: Asp221, H: Arg221A, H: Asp222, H: Gly223, H: Lys224, H: Tyr225, H: Hoh2260, H: Hoh2261, H: Hoh2272, H: Hoh2273, H: Hoh2274, H: Hoh2293, H: Hoh2298, H: Hoh2302, H: Hoh2306,

conact list:

AtomAtomDistance (A)
NaO H:Tyr184A4.11
NaO H:Asp2214.63
NaC H:Asp2214.11
NaOD1 H:Asp2214.75
NaCA H:Asp2214.39
NaO H:Arg221A2.26
NaN H:Arg221A3.90
NaC H:Arg221A3.35
NaCA H:Arg221A4.25
NaN H:Asp2224.23
NaC H:Asp2224.53
NaCA H:Asp2224.34
NaN H:Gly2234.25
NaC H:Gly2234.84
NaO H:Lys2242.27
NaN H:Lys2243.81
NaCB H:Lys2244.44
NaC H:Lys2243.38
NaCA H:Lys2244.08
NaN H:Tyr2254.43
NaCA H:Tyr2254.76
NaO H:Hoh22602.63
NaO H:Hoh22612.74
NaO H:Hoh22724.38
NaO H:Hoh22733.95
NaO H:Hoh22744.57
NaO H:Hoh22934.99
NaO H:Hoh22982.66
NaO H:Hoh23024.15
NaO H:Hoh23062.25

interactive model:

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