Magnesium in PDB 4ooq: Apo-Dutpase From Arabidopsis Thaliana

All present enzymatic activity of Apo-Dutpase From Arabidopsis Thaliana:
3.6.1.23;

The structure of Apo-Dutpase From Arabidopsis Thaliana, PDB code: 4ooq was solved by N.Inoguchi, M.Bajaj, H.Moriyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.34 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.939, 70.621, 75.001, 90.00, 90.00, 90.00
R / Rfree (%)	14.8 / 19.6

The binding sites of Magnesium atom in the Apo-Dutpase From Arabidopsis Thaliana (pdb code 4ooq). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Apo-Dutpase From Arabidopsis Thaliana, PDB code: 4ooq:

Magnesium binding site 1 out of 1 in the Apo-Dutpase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Apo-Dutpase From Arabidopsis Thaliana within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:12.4 occ:1.00 O A:HOH386 2.0 14.8 1.0 OE1 B:GLU138 2.0 25.4 1.0 OE1 A:GLU138 2.0 27.3 1.0 OE1 C:GLU138 2.1 26.3 1.0 CD B:GLU138 2.8 18.4 1.0 CD C:GLU138 2.9 20.7 1.0 CD A:GLU138 2.9 18.7 1.0 OE2 C:GLU138 3.0 14.2 1.0 OE2 B:GLU138 3.0 15.4 1.0 OE2 A:GLU138 3.0 17.5 1.0 OH B:TYR82 3.8 14.8 1.0 OH A:TYR82 3.8 13.4 1.0 OH C:TYR82 3.9 12.9 1.0 NE C:ARG84 4.0 12.5 1.0 NE A:ARG84 4.0 15.5 1.0 NE B:ARG84 4.0 13.7 1.0 CG C:GLU138 4.3 19.9 1.0 CG B:GLU138 4.3 18.4 1.0 CG A:GLU138 4.3 18.1 1.0 CD A:ARG84 4.3 14.3 1.0 CD B:ARG84 4.3 17.5 1.0 CD C:ARG84 4.3 13.6 1.0 O C:HOH301 4.7 21.0 1.0 CB B:GLU138 4.8 15.4 1.0 CB A:GLU138 4.8 15.7 1.0 CB C:GLU138 4.8 16.9 1.0 CZ C:ARG84 4.8 16.2 1.0 CZ A:ARG84 4.8 17.2 1.0 CZ B:ARG84 4.8 15.8 1.0 CZ B:TYR82 4.9 13.1 1.0 CZ A:TYR82 4.9 15.2 1.0

N.Inoguchi, K.Chaiseeda, M.Yamanishi, M.K.Kim, Y.Jang, M.Bajaj, C.P.Chia, D.F.Becker, H.Moriyama. Structural Insights Into the Mechanism Defining Substrate Affinity in Arabidopsis Thaliana Dutpase: the Role of Tryptophan 93 in Ligand Orientation. Bmc Res Notes V. 8 784 2015.
ISSN: ESSN 1756-0500
PubMed: 26666293
DOI: 10.1186/S13104-015-1760-1