Sodium in PDB 8bj2: Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State

The structure of Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State, PDB code: 8bj2 was solved by M.Rutkiewicz, M.Ruszkowski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	53.86 / 1.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	56.935, 105.837, 66.487, 90, 108.9, 90
R / Rfree (%)	13.4 / 16.4

The binding sites of Sodium atom in the Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State (pdb code 8bj2). 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 Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State, PDB code: 8bj2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State


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 Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:22.5 occ:1.00 O A:HOH810 2.4 48.2 1.0 O A:LEU317 2.5 23.1 1.0 O A:LYS312 2.6 22.1 1.0 O A:VAL314 2.6 22.6 1.0 O A:HOH890 2.8 29.0 1.0 O A:HOH856 3.2 43.6 1.0 C A:LYS312 3.6 21.8 1.0 O A:HOH956 3.6 36.2 1.0 C A:VAL314 3.7 22.3 1.0 C A:LEU317 3.7 20.8 1.0 O A:HOH527 4.0 45.8 1.0 O A:PRO315 4.1 26.3 1.0 C A:PRO315 4.2 25.7 1.0 CA A:PRO315 4.2 24.5 1.0 CA A:LYS312 4.2 21.4 1.0 O A:LEU311 4.3 21.1 1.0 N A:VAL314 4.3 22.5 1.0 N A:LEU317 4.3 22.5 1.0 O A:HOH855 4.4 34.9 1.0 N A:PRO315 4.4 23.0 1.0 C A:ALA313 4.5 22.6 1.0 N A:ALA313 4.6 21.3 1.0 CA A:LEU317 4.6 21.4 1.0 N A:LYS318 4.6 21.5 1.0 CA A:VAL314 4.6 22.1 1.0 CA A:LYS318 4.7 20.9 1.0 CA A:ALA313 4.8 22.4 1.0 O A:HOH1020 4.8 50.9 1.0 CD A:PRO319 4.9 21.9 1.0 O A:ALA313 4.9 25.8 1.0 N A:PHE316 4.9 24.3 1.0 CG A:LYS312 4.9 25.9 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State


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 Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Closed State within 5.0Å range: probe atom residue distance (Å) B Occ B:Na402 b:20.9 occ:1.00 O B:LEU317 2.5 22.7 1.0 O B:LYS312 2.6 19.4 1.0 O B:VAL314 2.7 20.8 1.0 O B:HOH878 2.8 39.5 1.0 O B:HOH908 3.3 30.4 1.0 C B:LYS312 3.7 18.1 1.0 C B:LEU317 3.7 20.2 1.0 O B:HOH641 3.7 47.0 1.0 C B:VAL314 3.7 20.8 1.0 O B:PRO315 3.9 27.9 1.0 O B:HOH861 4.1 41.9 1.0 C B:PRO315 4.1 23.3 1.0 CA B:PRO315 4.2 21.6 1.0 N B:LEU317 4.2 19.4 1.0 CA B:LYS312 4.3 16.8 1.0 N B:VAL314 4.4 19.7 1.0 N B:PRO315 4.4 22.3 1.0 O B:LEU311 4.5 18.6 1.0 CA B:LEU317 4.5 18.9 1.0 C B:ALA313 4.6 19.4 1.0 N B:LYS318 4.7 19.0 1.0 N B:ALA313 4.7 18.4 1.0 CA B:VAL314 4.7 18.9 1.0 CG B:LYS312 4.8 22.1 1.0 CA B:LYS318 4.8 19.6 1.0 N B:PHE316 4.8 21.1 1.0 CA B:ALA313 4.9 19.4 1.0 O B:ALA313 4.9 23.3 1.0

M.Rutkiewicz, I.Nogues, W.Witek, S.Angelaccio, R.Contestabile, M.Ruszkowski. Insights Into the Substrate Specificity, Structure, and Dynamics of Plant Histidinol-Phosphate Aminotransferase (HISN6). Plant Physiol Biochem. V. 196 759 2023.
ISSN: ESSN 1873-2690
PubMed: 36842242
DOI: 10.1016/J.PLAPHY.2023.02.017