Chemical elements
  Sodium
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      3hww
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      3hx0
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      3i01
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      3i0x
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      3i24
      3i2w
      3i31
      3i3b
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      3i44
      3i4q
      3i55
      3i56
      3i6e
      3i6o
      3i6v
      3i78
      3i8t
      3ian
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      3iaq
      3iax
      3ic3
      3ic9
      3icf
      3ife
      3ifv
      3ifz
      3igq
      3igr
      3igy
      3igz
      3ih5
      3ihr
      3ihv
      3ij6
      3ijm
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    PDB 8icx-9icy

Sodium in the structure of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae With Similarity to Human Phosphatase PP5 (pdb 3icf)






The binding sites of Sodium atom in the structure of Structure of Protein Serine/Threonine Phosphatase From Saccharomyces Cerevisiae With Similarity to Human Phosphatase PP5 (pdb code 3icf). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 3icf structure was solved by A.U.SINGER, X.XU, C.CHANG, H.CUI, O.KAGAN, A.M.EDWARDS, A.JOACHIMIAK, A.F.YAKUNIN, A.SAVCHENKO, MIDWEST CENTER FOR STRUCTURAL GENOMICS(MCSG), with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)40.3-2.3
Space groupP32
a (A)47.194
b (A)47.194
c (A)237.096
alpha (°)90.00
beta (°)90.00
gamma (°)120.00
Rfactor (%)19
Rfree (%)24


Sodium Binding Sites:

Sodium binding site 1 out of 1 in 3icf


Sodium binding site 1 out of 1 in 3icf
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 3icf
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3icf. 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: A: Ser219, A: His220, A: Asp222, A: Thr223, B: Ser219, B: His220, B: Asp222, B: Thr223, A: Hoh53, B: Hoh56,

conact list:


AtomAtomDistance (A)
NaO A:Ser2192.23
NaCB A:Ser2193.55
NaOG A:Ser2192.43
NaC A:Ser2193.05
NaCA A:Ser2193.66
NaN A:His2203.99
NaC A:His2204.95
NaCA A:His2204.28
NaCB A:Asp2224.86
NaOD1 A:Asp2224.74
NaN A:Thr2233.95
NaCB A:Thr2233.41
NaCG2 A:Thr2234.51
NaOG1 A:Thr2232.24
NaCA A:Thr2234.20
NaO B:Ser2192.23
NaCB B:Ser2193.59
NaOG B:Ser2192.50
NaC B:Ser2193.05
NaCA B:Ser2193.68
NaN B:His2203.97
NaC B:His2204.90
NaCA B:His2204.25
NaCB B:Asp2224.93
NaOD1 B:Asp2224.69
NaN B:Thr2233.94
NaCB B:Thr2233.37
NaCG2 B:Thr2234.47
NaOG1 B:Thr2232.24
NaCA B:Thr2234.17
NaO A:Hoh534.44
NaO B:Hoh564.47

interactive model:




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