Sodium in PDB 7l3m: Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid

All present enzymatic activity of Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid:
4.1.1.32;

The structure of Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid, PDB code: 7l3m was solved by J.A.Clinger, D.W.Moreau, M.J.Mcleod, T.Holyoak, R.E.Thorne, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	51.33 / 2.07
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	44.389, 118.935, 60.3, 90, 109.42, 90
R / Rfree (%)	17.2 / 18.6

The structure of Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid also contains other interesting chemical elements:

Manganese

(Mn)

3 atoms

The binding sites of Sodium atom in the Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid (pdb code 7l3m). 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 Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid, PDB code: 7l3m:

Sodium binding site 1 out of 1 in the Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Pepck Mmqx Structure 40MS Post-Mixing with Oxaloacetic Acid within 5.0Å range: probe atom residue distance (Å) B Occ A:Na702 b:26.1 occ:1.00 O A:ASN208 2.3 20.2 1.0 O A:HOH894 2.4 23.9 1.0 O A:LEU79 2.4 24.9 1.0 O A:HOH934 2.5 22.1 1.0 C A:ASN208 3.4 27.9 1.0 C A:LEU79 3.6 19.6 1.0 O A:VAL65 3.9 20.2 1.0 N A:LEU79 3.9 18.3 1.0 CB A:ASN208 4.0 27.4 1.0 CA A:LEU79 4.1 18.8 1.0 O A:GLY64 4.2 31.5 1.0 CB A:ASN209 4.2 30.5 1.0 CA A:ASN208 4.2 24.9 1.0 CB A:LEU79 4.2 15.8 1.0 C A:ASN209 4.3 26.2 1.0 N A:ASN209 4.4 17.9 1.0 O A:ASN209 4.4 22.9 1.0 CA A:ASN209 4.5 24.5 1.0 C A:VAL65 4.6 26.7 1.0 N A:THR80 4.7 18.5 1.0 CB A:TRP210 4.7 19.6 1.0 N A:TRP210 4.7 16.9 1.0 CA A:VAL65 4.8 20.1 1.0 CA A:THR80 5.0 18.7 1.0

J.A.Clinger, D.W.Moreau, M.J.Mcleod, T.Holyoak, R.E.Thorne. Millisecond Mix-and-Quench Crystallography (Mmqx) Enables Time-Resolved Studies of Pepck with Remote Data Collection. Iucrj V. 8 784 2021.
ISSN: ESSN 2052-2525
PubMed: 34584739
DOI: 10.1107/S2052252521007053