Sodium in PDB 7cnw: Crystal Structure of Apo Psd From E. Coli (1.90 A)

All present enzymatic activity of Crystal Structure of Apo Psd From E. Coli (1.90 A):
4.1.1.65;

The structure of Crystal Structure of Apo Psd From E. Coli (1.90 A), PDB code: 7cnw was solved by J.Kim, G.Cho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.81 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	77.443, 79.817, 147.089, 90, 90, 90
R / Rfree (%)	21.2 / 24.3

The binding sites of Sodium atom in the Crystal Structure of Apo Psd From E. Coli (1.90 A) (pdb code 7cnw). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Apo Psd From E. Coli (1.90 A), PDB code: 7cnw:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Apo Psd From E. Coli (1.90 A)


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 Apo Psd From E. Coli (1.90 A) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na303 b:47.2 occ:1.00 O A:LYS28 2.7 33.5 1.0 O A:GLY25 2.7 34.9 1.0 N A:PHE63 3.0 30.0 1.0 O A:ALA26 3.4 29.0 1.0 C A:ALA26 3.5 29.5 1.0 C9 A:LMT302 3.5 62.7 1.0 OG1 A:THR34 3.6 39.8 1.0 N A:LYS28 3.6 36.2 1.0 C A:LYS28 3.7 34.9 1.0 CB A:PHE63 3.7 32.2 1.0 CA A:ALA26 3.7 32.9 1.0 C7 A:LMT302 3.8 58.0 1.0 CA A:THR62 3.8 32.5 1.0 C A:GLY25 3.8 35.6 1.0 C8 A:LMT302 3.8 58.3 1.0 C A:THR62 3.9 28.1 1.0 CA A:PHE63 4.0 31.2 1.0 CA A:LYS28 4.0 39.9 1.0 CB A:THR62 4.1 30.3 1.0 N A:SER27 4.2 30.9 1.0 CB A:LYS28 4.2 45.6 1.0 N A:ALA26 4.2 31.9 1.0 CG2 A:THR34 4.4 41.6 1.0 C A:SER27 4.4 39.1 1.0 CB A:THR34 4.5 37.1 1.0 C6 A:LMT302 4.6 63.6 1.0 CA A:SER27 4.8 36.9 1.0 N A:ARG29 4.9 38.9 1.0 C10 A:LMT302 4.9 60.1 1.0 CA A:THR34 5.0 44.2 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Apo Psd From E. Coli (1.90 A)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Apo Psd From E. Coli (1.90 A) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na304 b:32.2 occ:1.00 NE A:ARG20 3.2 49.7 1.0 NH2 A:ARG20 3.3 44.7 1.0 NH1 A:ARG221 3.4 34.7 1.0 O6B A:LMT301 3.5 63.5 1.0 CG A:ARG221 3.5 36.0 1.0 C6B A:LMT301 3.6 53.5 1.0 N A:ARG221 3.6 32.5 1.0 CZ A:ARG20 3.7 48.7 1.0 CB A:ARG221 3.7 35.6 1.0 CD A:ARG221 3.8 31.4 1.0 CB A:PRO219 4.0 28.2 1.0 CA A:PRO220 4.2 38.1 1.0 CD A:ARG20 4.2 42.6 1.0 CG A:ARG20 4.3 35.2 1.0 C A:PRO220 4.3 33.8 1.0 CA A:ARG221 4.3 31.6 1.0 CZ A:ARG221 4.4 31.7 1.0 NE A:ARG221 4.5 31.2 1.0 CD1 A:LEU16 4.7 42.8 1.0 CA A:PRO219 4.8 27.3 1.0 CB A:PRO220 4.9 40.2 1.0

G.Cho, E.Lee, J.Kim. Structural Insights Into Phosphatidylethanolamine Formation in Bacterial Membrane Biogenesis. Sci Rep V. 11 5785 2021.
ISSN: ESSN 2045-2322
PubMed: 33707636
DOI: 10.1038/S41598-021-85195-5