Magnesium in PDB 6iuy: Structure of Dsgpdh of Dunaliella Salina

All present enzymatic activity of Structure of Dsgpdh of Dunaliella Salina:
1.1.1.8;

The structure of Structure of Dsgpdh of Dunaliella Salina, PDB code: 6iuy was solved by Q.He, J.D.Toh, R.Ero, Z.Qiao, V.Kumar, Y.G.Gao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.36 / 2.20
Space group	P 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	91.335, 91.335, 348.319, 90.00, 90.00, 90.00
R / Rfree (%)	19.9 / 24.8

The binding sites of Magnesium atom in the Structure of Dsgpdh of Dunaliella Salina (pdb code 6iuy). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Dsgpdh of Dunaliella Salina, PDB code: 6iuy:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of Dsgpdh of Dunaliella Salina


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Dsgpdh of Dunaliella Salina within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg704 b:59.4 occ:1.00 O A:ASP118 2.1 61.0 1.0 OD2 A:ASP116 2.1 62.9 1.0 OD1 A:ASP281 2.2 66.9 1.0 C1 A:GOL703 3.0 72.6 1.0 CG A:ASP281 3.0 70.7 1.0 OD2 A:ASP281 3.1 72.0 1.0 C A:ASP118 3.2 60.8 1.0 CG A:ASP116 3.2 62.6 1.0 O1 A:GOL703 3.4 74.4 1.0 CB A:ASP118 3.6 69.1 1.0 OD1 A:ASP116 3.7 62.1 1.0 CA A:ASP118 3.8 62.8 1.0 C2 A:GOL703 4.1 68.0 1.0 OD2 A:ASP285 4.1 65.3 1.0 C3 A:GOL703 4.2 72.0 1.0 N A:ASP118 4.2 64.5 1.0 N A:GLY282 4.2 74.8 1.0 CG2 A:THR120 4.3 59.2 1.0 O3 A:GOL703 4.3 68.1 1.0 N A:ARG119 4.4 60.9 1.0 CB A:ASP281 4.4 69.0 1.0 CB A:ASP116 4.4 60.7 1.0 CB A:ARG119 4.5 65.4 1.0 NH1 A:ARG119 4.5 76.4 1.0 N A:ASP281 4.6 69.2 1.0 O2 A:GOL703 4.7 69.2 1.0 CA A:GLY282 4.8 71.7 1.0 CA A:ARG119 4.8 67.9 1.0 CA A:ASP281 4.9 67.9 1.0 CG A:ASP118 5.0 68.0 1.0

Magnesium binding site 2 out of 2 in the Structure of Dsgpdh of Dunaliella Salina


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Dsgpdh of Dunaliella Salina within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg703 b:73.1 occ:1.00 OD2 B:ASP116 2.4 66.5 1.0 OD1 B:ASP281 2.4 62.5 1.0 O B:ASP118 2.7 63.9 1.0 CG B:ASP281 3.3 66.3 1.0 OD2 B:ASP281 3.4 71.9 1.0 CG B:ASP116 3.5 58.0 1.0 C B:ASP118 3.6 59.8 1.0 CB B:ASP118 3.7 69.2 1.0 NH1 B:ARG119 3.8 84.4 1.0 OD1 B:ASP116 3.9 61.5 1.0 CA B:ASP118 4.2 63.8 1.0 CB B:ARG119 4.5 66.8 1.0 OD2 B:ASP285 4.6 55.5 1.0 N B:ASP118 4.6 63.7 1.0 CB B:ASP281 4.7 59.3 1.0 O B:HOH817 4.7 61.6 1.0 N B:ARG119 4.7 63.9 1.0 CB B:ASP116 4.7 53.6 1.0 N B:GLY282 4.8 62.8 1.0 CG2 B:THR120 4.8 53.8 1.0 O B:HOH937 4.8 61.2 1.0 CG B:ARG119 4.8 71.2 1.0 CZ B:ARG119 5.0 88.3 1.0 NH1 B:ARG308 5.0 78.6 1.0

Q.He, J.D.Toh, R.Ero, Z.Qiao, V.Kumar, A.Serra, J.Tan, S.K.Sze, Y.G.Gao. The Unusual Di-Domain Structure of Dunaliella Salina Glycerol-3-Phosphate Dehydrogenase Enables Direct Conversion of Dihydroxyacetone Phosphate to Glycerol. Plant J. 2019.
ISSN: ESSN 1365-313X
PubMed: 31762135
DOI: 10.1111/TPJ.14619