Magnesium in PDB 1w1z: Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme

All present enzymatic activity of Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme:
4.2.1.24;

The structure of Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme, PDB code: 1w1z was solved by L.Coates, G.Beaven, P.T.Erskine, S.I.Beale, Y.J.Avissar, R.Gill, F.Mohammed, S.P.Wood, P.Shoolingin-Jordan, J.B.Cooper, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.60
Space group	P 4 21 2
Cell size a, b, c (Å), α, β, γ (°)	125.235, 125.235, 164.603, 90.00, 90.00, 90.00
R / Rfree (%)	29.1 / 38.2

The binding sites of Magnesium atom in the Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme (pdb code 1w1z). 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 the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme, PDB code: 1w1z:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1329 b:25.0 occ:1.00 OE1 A:GLU238 2.0 6.7 1.0 O A:HOH2120 2.9 26.5 1.0 O A:HOH2086 2.9 49.3 1.0 O A:HOH2119 2.9 19.7 1.0 O A:HOH2087 3.0 20.2 1.0 O A:HOH2089 3.0 34.1 1.0 CD A:GLU238 3.0 4.6 1.0 OE2 A:GLU238 3.4 7.4 1.0 O A:HOH2092 3.7 6.6 1.0 O A:HOH2090 3.8 1.0 1.0 NH1 A:ARG176 4.1 1.8 1.0 CG A:GLU238 4.3 7.0 1.0 CB A:GLU238 4.5 5.2 1.0 OD1 A:ASP174 4.5 0.0 1.0 O A:MET173 4.6 3.9 1.0 OD2 A:ASP242 4.6 15.7 1.0 O A:GLU238 4.6 13.7 1.0 CG B:PRO13 4.6 0.0 1.0 OD1 A:ASP242 4.6 10.4 1.0 CA A:GLU238 4.7 1.8 1.0 O A:ALA198 4.7 5.3 1.0 CG A:ASP242 4.9 12.4 1.0 CA A:ASP174 4.9 4.7 1.0 O A:HOH2122 4.9 6.7 1.0 SD A:MET172 5.0 5.1 1.0

Magnesium binding site 2 out of 2 in the Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1329 b:35.5 occ:1.00 OE1 B:GLU238 1.1 13.6 1.0 CD B:GLU238 2.2 6.2 1.0 OE2 B:GLU238 2.8 0.7 1.0 O B:HOH2142 2.9 17.4 1.0 O B:HOH2115 2.9 31.7 1.0 O B:HOH2111 3.0 31.6 1.0 O B:HOH2141 3.0 11.2 1.0 CG B:GLU238 3.5 6.0 1.0 CB B:GLU238 3.7 7.5 1.0 O B:HOH2110 4.0 16.4 1.0 CA B:GLU238 4.1 8.1 1.0 O B:ALA198 4.1 2.8 1.0 CG A:PRO13 4.3 0.0 1.0 O B:GLU238 4.4 0.0 1.0 O B:HOH2114 4.4 15.4 1.0 OD1 B:ASP174 4.5 7.1 1.0 C B:GLU238 4.6 3.2 1.0 OD2 B:ASP242 4.7 4.3 1.0 CB A:PRO13 4.8 0.0 1.0 NH1 B:ARG176 4.8 2.2 1.0 OD1 B:ASP242 4.8 0.0 1.0 SD B:MET172 4.9 4.0 1.0 CE B:MET172 4.9 0.0 1.0 NH2 A:ARG17 5.0 2.4 1.0

L.Coates, G.Beaven, P.T.Erskine, S.I.Beale, Y.J.Avissar, R.Gill, F.Mohammed, S.P.Wood, P.Shoolingin-Jordan, J.B.Cooper. The X-Ray Structure of the Plant Like 5-Aminolaevulinic Acid Dehydratase From Chlorobium Vibrioforme Complexed with the Inhibitor Laevulinic Acid at 2.6 A Resolution. J. Mol. Biol. V. 342 563 2004.
ISSN: ISSN 0022-2836
PubMed: 15327955
DOI: 10.1016/J.JMB.2004.07.007