Sodium in PDB 1z8j: Crystal Structure of the Thrombin Mutant G193P Bound to Ppack

All present enzymatic activity of Crystal Structure of the Thrombin Mutant G193P Bound to Ppack:
3.4.21.5;

The structure of Crystal Structure of the Thrombin Mutant G193P Bound to Ppack, PDB code: 1z8j was solved by K.M.Bobofchak, A.O.Pineda, F.S.Mathews, E.Di Cera, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	49.710, 73.550, 90.100, 90.00, 90.00, 90.00
R / Rfree (%)	20.5 / 24.6

The structure of Crystal Structure of the Thrombin Mutant G193P Bound to Ppack also contains other interesting chemical elements:

Zinc

(Zn)

3 atoms

The binding sites of Sodium atom in the Crystal Structure of the Thrombin Mutant G193P Bound to Ppack (pdb code 1z8j). 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 Crystal Structure of the Thrombin Mutant G193P Bound to Ppack, PDB code: 1z8j:

Sodium binding site 1 out of 1 in the Crystal Structure of the Thrombin Mutant G193P Bound to Ppack


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Thrombin Mutant G193P Bound to Ppack within 5.0Å range: probe atom residue distance (Å) B Occ B:Na601 b:36.4 occ:1.00 O B:HOH313 2.3 29.3 1.0 O B:HOH328 2.4 38.5 1.0 O B:ARG221 2.4 31.3 1.0 O B:LYS224 2.4 28.4 1.0 O B:HOH333 2.6 35.4 1.0 O B:HOH330 2.8 40.6 1.0 C B:ARG221 3.5 33.2 1.0 C B:LYS224 3.5 28.9 1.0 O B:HOH315 3.8 36.6 1.0 O B:HOH327 3.8 38.3 1.0 N B:LYS224 3.9 34.3 1.0 N B:ARG221 4.0 31.1 1.0 O B:TYR184A 4.0 32.1 1.0 C B:ASP221A 4.1 33.1 1.0 O B:HOH312 4.2 28.3 1.0 CA B:LYS224 4.3 30.9 1.0 N B:ASP222 4.3 33.3 1.0 O B:HOH470 4.4 49.9 1.0 N B:GLY223 4.4 33.9 1.0 CA B:ASP222 4.4 33.7 1.0 CA B:ARG221 4.4 30.1 1.0 CA B:ASP221A 4.4 30.9 1.0 N B:TYR225 4.5 28.5 1.0 C B:ASP222 4.6 34.4 1.0 O B:ASP221A 4.6 34.3 1.0 OD1 B:ASP221A 4.7 36.3 1.0 CA B:TYR225 4.7 24.7 1.0 CB B:LYS224 4.7 35.0 1.0 CD1 B:TYR225 4.7 31.7 1.0 CE1 B:TYR225 4.9 36.0 1.0 C B:GLY223 4.9 35.0 1.0

K.M.Bobofchak, A.O.Pineda, F.S.Mathews, E.Di Cera. Energetic and Structural Consequences of Perturbing Gly-193 in the Oxyanion Hole of Serine Proteases J.Biol.Chem. V. 280 25644 2005.
ISSN: ISSN 0021-9258
PubMed: 15890651
DOI: 10.1074/JBC.M503499200