Sodium in PDB 8bve: MOEA2 From Corynebacterium Glutamicum

The structure of MOEA2 From Corynebacterium Glutamicum, PDB code: 8bve was solved by M.Martinez, A.Haouz, A.M.Wehenkel, P.M.Alzari, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.20 / 2.14
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	94.443, 94.443, 230.564, 90, 90, 90
R / Rfree (%)	20 / 22.7

The binding sites of Sodium atom in the MOEA2 From Corynebacterium Glutamicum (pdb code 8bve). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the MOEA2 From Corynebacterium Glutamicum, PDB code: 8bve:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the MOEA2 From Corynebacterium Glutamicum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of MOEA2 From Corynebacterium Glutamicum within 5.0Å range: probe atom residue distance (Å) B Occ A:Na501 b:69.4 occ:1.00 O A:VAL401 2.4 77.8 1.0 OG A:SER348 2.7 72.5 1.0 O A:VAL349 2.7 84.2 1.0 O A:PRO398 2.7 66.3 1.0 O A:ARG352 2.8 63.0 1.0 O A:GLU399 2.8 73.3 1.0 C A:GLU399 3.4 73.1 1.0 C A:VAL401 3.6 78.6 1.0 CA A:GLU399 3.7 67.9 1.0 C A:VAL349 3.7 87.9 1.0 CB A:SER348 3.7 73.1 1.0 C A:PRO398 3.8 68.3 1.0 C A:ARG352 3.9 63.1 1.0 N A:VAL401 4.0 78.0 1.0 CG2 A:ILE397 4.0 65.7 1.0 N A:ARG352 4.2 68.5 1.0 N A:GLU399 4.2 66.8 1.0 CA A:VAL401 4.3 78.5 1.0 N A:VAL349 4.3 89.4 1.0 N A:ASP400 4.4 72.8 1.0 N A:GLY351 4.4 73.9 1.0 CA A:ALA350 4.4 78.5 1.0 N A:ALA350 4.5 81.6 1.0 C A:SER348 4.5 80.2 1.0 O A:ILE397 4.6 60.1 1.0 N A:THR402 4.6 82.4 1.0 C A:ASP400 4.6 81.8 1.0 CA A:ARG352 4.7 64.6 1.0 CA A:VAL349 4.7 86.4 1.0 CA A:THR402 4.7 82.2 1.0 CA A:SER348 4.7 76.7 1.0 C A:ALA350 4.8 77.1 1.0 CB A:VAL401 4.8 76.0 1.0 N A:LYS353 4.8 60.4 1.0 NE2 A:HIS285 4.9 62.8 1.0 CB A:ILE397 4.9 63.5 1.0 C A:ILE397 4.9 63.5 1.0 CA A:ASP400 4.9 78.6 1.0 CA A:LYS353 4.9 60.4 1.0 N A:GLY354 5.0 58.4 1.0

Sodium binding site 2 out of 2 in the MOEA2 From Corynebacterium Glutamicum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of MOEA2 From Corynebacterium Glutamicum within 5.0Å range: probe atom residue distance (Å) B Occ B:Na501 b:33.2 occ:1.00 O B:VAL349 2.5 38.4 1.0 O B:VAL401 2.6 40.8 1.0 O B:ARG352 2.6 38.4 1.0 OG B:SER348 2.6 37.6 1.0 O B:GLU399 2.7 41.1 1.0 O B:PRO398 2.8 37.5 1.0 C B:GLU399 3.3 43.1 1.0 CB B:SER348 3.6 38.4 1.0 C B:VAL349 3.6 39.2 1.0 CA B:GLU399 3.7 42.9 1.0 C B:VAL401 3.7 42.2 1.0 C B:ARG352 3.7 40.5 1.0 C B:PRO398 3.8 41.9 1.0 N B:VAL401 4.0 39.5 1.0 N B:VAL349 4.0 37.1 1.0 N B:ARG352 4.1 40.4 1.0 C B:SER348 4.2 39.9 1.0 N B:GLU399 4.2 38.7 1.0 CG2 B:ILE397 4.2 39.9 1.0 N B:ASP400 4.3 41.5 1.0 CA B:VAL401 4.4 43.1 1.0 O B:ILE397 4.4 40.0 1.0 CA B:VAL349 4.5 37.6 1.0 N B:GLY351 4.5 41.5 1.0 N B:ALA350 4.5 37.9 1.0 C B:ASP400 4.5 42.4 1.0 CA B:SER348 4.5 38.5 1.0 CA B:ARG352 4.5 42.9 1.0 NE2 B:HIS285 4.6 38.9 1.0 CA B:ALA350 4.6 40.0 1.0 O B:SER348 4.6 40.1 1.0 N B:LYS353 4.7 40.8 1.0 N B:GLY354 4.7 38.5 1.0 N B:THR402 4.8 41.0 1.0 CA B:LYS353 4.8 41.0 1.0 CA B:ASP400 4.8 45.4 1.0 C B:ILE397 4.8 38.6 1.0 CB B:ILE397 4.9 38.9 1.0 CB B:VAL401 4.9 40.5 1.0 C B:ALA350 4.9 40.9 1.0 CD2 B:HIS285 4.9 38.5 1.0 CA B:THR402 5.0 42.6 1.0

M.Martinez, J.Petit, A.Leyva, A.Sogues, D.Megrian, A.Rodriguez, Q.Gaday, M.Ben Assaya, M.Portela, A.Haouz, A.Ducret, C.Grangeasse, P.M.Alzari, R.Dur N, A.Wehenkel. Eukaryotic-Like Gephyrin and Cognate Membrane Receptor Coordinate Corynebacterial Cell Division and Polar Elongation. Biorxiv 2023.
ISSN: ISSN 2692-8205
PubMed: 36778425
DOI: 10.1101/2023.02.01.526586