Sodium in PDB 8ris: Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A)

All present enzymatic activity of Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A):
6.1.1.26;

The structure of Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A), PDB code: 8ris was solved by G.Oberdorfer, M.Moser, D.Stoll, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.17 / 2.70
Space group	P 64
Cell size a, b, c (Å), α, β, γ (°)	104.306, 104.306, 70.807, 90, 90, 120
R / Rfree (%)	21.7 / 24.4

The binding sites of Sodium atom in the Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A) (pdb code 8ris). 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 Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A), PDB code: 8ris:

Sodium binding site 1 out of 1 in the Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:92.8 occ:1.00 OD1 A:ASP386 3.1 117.6 1.0 CA A:ASP386 3.5 137.6 1.0 O A:HOH661 3.5 80.6 1.0 C A:ASP386 3.7 121.2 1.0 NH1 A:ARG356 4.0 103.8 1.0 O A:ASP386 4.0 110.7 1.0 CG A:ASP386 4.1 123.6 1.0 N A:THR387 4.2 114.5 1.0 N A:ASP386 4.4 132.3 1.0 CB A:ASP386 4.4 134.3 1.0 O A:ASP379 4.4 121.1 1.0 CD A:ARG356 4.5 83.0 1.0 CZ A:ARG356 4.6 99.6 1.0 CD2 A:LEU388 4.6 88.8 1.0 CG2 A:VAL402 4.7 88.3 1.0 NE A:ARG356 4.8 89.0 1.0 O A:THR387 4.8 104.9 1.0 CB A:VAL402 4.8 82.0 1.0 O A:HOH656 4.9 77.7 1.0 CA A:THR387 5.0 104.3 1.0

G.Oberdorfer, M.Moser, D.Stoll. Computationally Redesigend Variant of Pyrrolysyl-Trna Synthetase (Y306A) To Be Published.