Sodium in PDB 8bj1: Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Open State

The structure of Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Open State, PDB code: 8bj1 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)	36.97 / 1.57
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	66.661, 87.373, 74.235, 90, 95.19, 90
R / Rfree (%)	12.7 / 17

The binding sites of Sodium atom in the Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Open State (pdb code 8bj1). 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 Open State, PDB code: 8bj1:
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 Open 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 Open State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na411 b:38.1 occ:1.00 O A:VAL314 2.3 24.7 1.0 O A:LEU317 2.3 23.9 1.0 O A:LYS312 2.3 27.0 0.5 O A:LYS312 2.3 27.4 0.5 O A:HOH791 2.4 31.1 0.5 C A:LYS312 3.2 27.2 0.5 C A:LYS312 3.2 27.3 0.5 C A:VAL314 3.4 25.2 1.0 C A:LEU317 3.5 21.1 1.0 O A:LEU311 3.6 28.9 1.0 CA A:LYS312 3.8 26.9 0.5 CA A:LYS312 3.8 27.0 0.5 N A:VAL314 3.9 27.5 1.0 N A:LEU317 4.1 21.5 1.0 C A:ALA313 4.2 29.4 1.0 CA A:VAL314 4.2 27.4 1.0 CA A:PRO315 4.2 27.3 1.0 N A:ALA313 4.2 26.2 1.0 N A:PRO315 4.3 27.6 1.0 CA A:LEU317 4.3 20.2 1.0 C A:PRO315 4.4 28.9 1.0 CD A:PRO319 4.5 20.4 1.0 N A:LYS318 4.5 20.5 1.0 O A:PRO315 4.6 31.7 1.0 CA A:ALA313 4.6 29.9 1.0 C A:LEU311 4.6 27.9 1.0 CG A:LYS312 4.6 29.5 0.5 CA A:LYS318 4.7 19.2 1.0 N A:LYS312 4.7 26.9 0.5 N A:LYS312 4.7 26.9 0.5 CG A:LYS312 4.7 30.1 0.5 CB A:LEU317 4.8 21.9 1.0 O A:ALA313 4.8 33.0 1.0 CB A:LYS312 4.8 27.7 0.5 N A:PHE316 4.8 25.2 1.0 CB A:VAL314 4.9 28.1 1.0 CB A:LYS312 4.9 27.8 0.5

Sodium binding site 2 out of 2 in the Crystal Structure of Medicago Truncatula Histidinol-Phosphate Aminotransferase (HISN6) in the Open 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 Open State within 5.0Å range: probe atom residue distance (Å) B Occ B:Na412 b:43.5 occ:1.00 O B:LEU317 2.3 28.2 1.0 O B:VAL314 2.4 30.2 1.0 O B:LYS312 2.5 31.7 1.0 O B:HOH813 2.6 58.5 1.0 C B:LYS312 3.4 30.8 1.0 C B:LEU317 3.5 25.9 1.0 C B:VAL314 3.5 27.2 1.0 O B:LEU311 4.0 26.9 1.0 CA B:LYS312 4.0 28.7 1.0 N B:VAL314 4.1 28.5 1.0 O B:HOH663 4.1 49.1 1.0 N B:LEU317 4.1 25.1 1.0 CA B:PRO315 4.3 29.2 1.0 C B:PRO315 4.3 30.0 1.0 O B:PRO315 4.3 32.1 1.0 CA B:LEU317 4.4 24.1 1.0 N B:PRO315 4.4 27.2 1.0 C B:ALA313 4.4 32.8 1.0 O B:HOH821 4.4 63.1 1.0 CA B:VAL314 4.4 26.1 1.0 N B:ALA313 4.4 30.4 1.0 N B:LYS318 4.5 24.2 1.0 CA B:LYS318 4.6 23.9 1.0 CD B:PRO319 4.7 25.6 1.0 CA B:ALA313 4.7 31.2 1.0 CB B:LEU317 4.8 22.2 1.0 N B:PHE316 4.8 27.6 1.0 CG B:LYS312 4.9 37.4 1.0 O B:ALA313 4.9 38.2 1.0 C B:LEU311 4.9 26.6 1.0 N B:LYS312 5.0 26.1 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