Magnesium in PDB 6kwb: ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex

The structure of ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex, PDB code: 6kwb was solved by S.Rhee, S.Jin, H.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.21 / 2.52
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	75.880, 76.799, 166.292, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 28.2

The binding sites of Magnesium atom in the ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex (pdb code 6kwb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex, PDB code: 6kwb:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:75.6 occ:1.00 OD1 A:ASP178 2.2 76.4 1.0 O2 A:AKG302 2.3 85.7 1.0 O5 A:AKG302 2.5 83.6 1.0 NE2 A:HIS235 2.6 69.6 1.0 NE2 A:HIS176 3.0 68.9 1.0 C1 A:AKG302 3.1 83.8 1.0 CG A:ASP178 3.2 70.6 1.0 C2 A:AKG302 3.2 86.5 1.0 OD2 A:ASP178 3.4 73.0 1.0 CE1 A:HIS235 3.5 68.1 1.0 CD2 A:HIS235 3.5 66.7 1.0 CE1 A:HIS176 3.8 74.4 1.0 CD2 A:HIS176 3.9 75.6 1.0 O1 A:AKG302 4.3 77.1 1.0 CB A:ASP178 4.6 63.7 1.0 ND1 A:HIS235 4.6 62.5 1.0 C3 A:AKG302 4.7 76.7 1.0 CG A:HIS235 4.7 59.3 1.0 CE1 A:PHE251 4.7 60.8 1.0 ND1 A:HIS176 4.9 68.3 1.0 CA A:ASP178 5.0 69.6 1.0 N A:ASP178 5.0 67.3 1.0

Magnesium binding site 2 out of 2 in the ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of ATDAO1(Dioxygenase For Auxin Oxidation 1 From Arabidopsis Thaliana) - 2-Oxoglutarate Binray Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg301 b:84.0 occ:1.00 NE2 B:HIS235 2.4 71.2 1.0 O B:HOH407 2.5 75.8 1.0 OD1 B:ASP178 2.8 71.5 1.0 CD2 B:HIS235 2.9 68.2 1.0 NE2 B:HIS176 3.2 79.0 1.0 CE1 B:HIS176 3.4 74.0 1.0 OD2 B:ASP178 3.5 81.0 1.0 CG B:ASP178 3.6 70.6 1.0 CE1 B:HIS235 3.6 68.8 1.0 CG B:HIS235 4.2 68.8 1.0 ND1 B:HIS235 4.5 72.5 1.0 CD2 B:HIS176 4.5 72.9 1.0 ND1 B:HIS176 4.6 75.9 1.0 ND2 B:ASN217 4.7 77.0 1.0

S.H.Jin, H.Lee, Y.Shin, J.H.Kim, S.Rhee. Crystal Structure of the Indole-3-Acetic Acid-Catabolizing Enzyme DAO1 From Arabidopsis Thaliana. J.Struct.Biol. V. 212 07632 2020.
ISSN: ESSN 1095-8657
PubMed: 32980521
DOI: 10.1016/J.JSB.2020.107632