Sodium in PDB 6bxr: Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B)

The structure of Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B), PDB code: 6bxr was solved by M.L.Parker, R.Ramaswamy, M.J.Boulanger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.61 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	45.090, 62.110, 89.210, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 21.3

The structure of Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B) also contains other interesting chemical elements:

Bromine

(Br)

11 atoms

The binding sites of Sodium atom in the Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B) (pdb code 6bxr). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B), PDB code: 6bxr:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B)


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 Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na512 b:36.6 occ:1.00 BR A:BR503 2.6 24.4 0.4 O A:HOH783 3.2 13.0 1.0 O A:HOH810 3.2 30.2 1.0 CB A:ASN218 3.8 11.3 1.0 N A:ALA219 4.1 10.4 1.0 CB A:ALA219 4.1 14.3 1.0 C A:ASN218 4.4 14.1 1.0 CA A:ALA219 4.5 10.5 1.0 CG A:PRO307 4.7 16.4 1.0 CA A:ASN218 4.7 10.5 1.0 CG A:ASN218 4.7 12.6 1.0 OD1 A:ASN218 4.8 15.6 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B)


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 Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na513 b:36.7 occ:1.00 O A:HOH825 2.7 23.4 1.0 BR A:BR504 2.7 26.2 0.5 O A:HOH714 3.0 19.4 1.0 N A:GLY224 3.1 14.9 1.0 O A:HOH690 3.8 24.7 1.0 CA A:GLY224 3.8 17.2 1.0 C A:GLY223 4.0 12.4 1.0 CA A:GLY223 4.0 9.8 1.0 O A:HOH719 4.6 13.6 1.0 O A:GLY224 4.6 14.4 1.0 C A:GLY224 4.7 15.9 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Toxoplasma Gondii Mitochondrial Association Factor 1 B (MAF1B) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na514 b:21.1 occ:1.00 O A:HOH675 2.8 9.3 1.0 N A:GLY385 2.8 10.8 1.0 BR A:BR511 3.1 20.8 0.6 CB A:ALA215 3.3 8.7 1.0 CB A:ALA337 3.4 8.8 1.0 CA A:GLY385 3.5 11.3 1.0 C A:LEU384 3.8 9.0 1.0 CA A:ALA215 3.9 8.8 1.0 CA A:LEU384 3.9 8.4 1.0 CD2 A:LEU384 4.0 8.9 1.0 O A:HOH762 4.1 24.8 1.0 CD2 A:PHE389 4.2 12.7 1.0 CB A:LEU384 4.3 8.2 1.0 C A:ALA215 4.4 9.8 1.0 C A:GLY385 4.4 11.3 1.0 N A:ALA337 4.6 8.0 1.0 N A:GLY386 4.6 10.0 1.0 CA A:ALA337 4.6 8.9 1.0 CG A:PHE389 4.6 13.6 1.0 CE2 A:PHE389 4.7 12.6 1.0 O A:ALA215 4.8 11.3 1.0 CG A:LEU384 4.8 8.9 1.0 CB A:PHE389 4.8 12.5 1.0 O A:GLY216 4.8 12.1 1.0 N A:GLY216 4.9 8.4 1.0 O A:LEU384 5.0 9.8 1.0

M.L.Blank, M.L.Parker, R.Ramaswamy, C.J.Powell, E.D.English, Y.Adomako-Ankomah, L.F.Pernas, S.D.Workman, J.C.Boothroyd, M.J.Boulanger, J.P.Boyle. A Toxoplasma Gondii Locus Required For the Direct Manipulation of Host Mitochondria Has Maintained Multiple Ancestral Functions. Mol. Microbiol. V. 108 519 2018.
ISSN: ESSN 1365-2958
PubMed: 29505111
DOI: 10.1111/MMI.13947