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    PDB 8icx-9icy

Sodium in the structure of L-Aspartate Oxidase: R386L Mutant (pdb 1knr)

The binding sites of Sodium atom in the structure of L-Aspartate Oxidase: R386L Mutant (pdb code 1knr). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 1knr structure was solved by R.T.BOSSI, A.MATTEVI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)40.0-2.5
Space groupP41212
a (A)73.278
b (A)73.278
c (A)313.933
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)25
Rfree (%)29.5

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 1knr

Sodium binding site 1 out of 1 in 1knr
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 1knr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1knr. 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: Tyr352, A: Thr353, A: Cys354, A: Gly355, A: Gly356, A: Gly374, A: Glu375, A: Val376, A: Ser377, A: Tyr378, A: His382, A: Glu394, A: Hoh808,

conact list:

AtomAtomDistance (A)
NaCE2 A:Tyr3524.64
NaCZ A:Tyr3524.60
NaOH A:Tyr3524.17
NaO A:Thr3532.77
NaCB A:Thr3534.85
NaC A:Thr3533.97
NaO A:Cys3543.79
NaN A:Cys3544.62
NaC A:Cys3543.78
NaCA A:Cys3544.25
NaO A:Gly3552.57
NaN A:Gly3554.17
NaC A:Gly3553.76
NaCA A:Gly3554.49
NaN A:Gly3564.77
NaCA A:Gly3565.00
NaO A:Gly3744.07
NaC A:Gly3744.79
NaO A:Glu3752.19
NaN A:Glu3754.67
NaCB A:Glu3754.49
NaC A:Glu3753.12
NaCG A:Glu3754.29
NaCA A:Glu3753.59
NaO A:Val3764.92
NaN A:Val3764.25
NaC A:Val3764.34
NaCA A:Val3764.75
NaO A:Ser3772.37
NaN A:Ser3773.87
NaOG A:Ser3774.42
NaC A:Ser3773.55
NaCA A:Ser3774.29
NaN A:Tyr3784.60
NaCA A:Tyr3784.82
NaCD2 A:His3824.80
NaOE1 A:Glu3944.68
NaO A:Hoh8084.36

interactive model:

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