Magnesium in PDB 6z9h: Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant

All present enzymatic activity of Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant:
4.1.2.4;

The structure of Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant, PDB code: 6z9h was solved by J.Paakkonen, N.Hakulinen, J.Rouvinen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.35 / 1.72
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	61.750, 53.870, 80.530, 90.00, 110.68, 90.00
R / Rfree (%)	18.2 / 22.7

The binding sites of Magnesium atom in the Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant (pdb code 6z9h). 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 Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant, PDB code: 6z9h:

Magnesium binding site 1 out of 1 in the Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Escherichia Coli D-2-Deoxyribose-5-Phosphate Aldolase - C47V/G204A/S239D Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg302 b:47.5 occ:1.00 O B:HOH444 2.1 40.7 1.0 O B:HOH524 2.3 29.8 1.0 OE2 B:GLU144 4.0 22.7 1.0 O B:HOH505 4.1 22.8 1.0 OE1 B:GLU144 4.2 23.8 1.0 CD B:GLU144 4.6 23.2 1.0 O B:HOH502 4.8 27.9 1.0

S.Voutilainen, M.Heinonen, M.Andberg, E.Jokinen, H.Maaheimo, J.Paakkonen, N.Hakulinen, J.Rouvinen, H.Lahdesmaki, S.Kaski, J.Rousu, M.Penttila, A.Koivula. Substrate Specificity of 2-Deoxy-D-Ribose 5-Phosphate Aldolase (Dera) Assessed By Different Protein Engineering and Machine Learning Methods. Appl.Microbiol.Biotechnol. V. 104 10515 2020.
ISSN: ESSN 1432-0614
PubMed: 33147349
DOI: 10.1007/S00253-020-10960-X