Magnesium in PDB 5ilg: Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster

All present enzymatic activity of Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster:
1.1.1.1; 1.1.1.105;

The structure of Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster, PDB code: 5ilg was solved by L.Hofmann, Y.Tsybovsky, S.Banerjee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	72.46 / 2.40
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	44.195, 93.477, 114.674, 90.00, 90.00, 90.00
R / Rfree (%)	17.1 / 22.2

The binding sites of Magnesium atom in the Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster (pdb code 5ilg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster, PDB code: 5ilg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:42.3 occ:1.00 O1A A:NAD302 2.4 23.9 1.0 O A:GLY92 2.9 21.3 1.0 O A:HOH497 3.0 26.8 1.0 CA A:ILE93 3.6 24.7 1.0 PA A:NAD302 3.7 27.1 1.0 CG A:MET189 3.8 28.9 1.0 C A:GLY92 3.9 22.9 1.0 C5B A:NAD302 3.9 29.0 1.0 CB A:MET189 3.9 29.1 1.0 CA A:MET189 4.0 28.4 1.0 O5D A:NAD302 4.0 29.2 1.0 O3 A:NAD302 4.1 28.8 1.0 CG2 A:ILE93 4.1 23.7 1.0 N A:ILE93 4.2 23.1 1.0 O5B A:NAD302 4.3 27.3 1.0 CB A:ILE93 4.3 24.6 1.0 O A:HOH421 4.3 26.3 1.0 N A:PHE94 4.3 27.3 1.0 C A:ILE93 4.4 25.6 1.0 N A:MET189 4.5 28.9 1.0 C5D A:NAD302 4.6 29.6 1.0 SD A:MET189 4.6 27.1 1.0 PN A:NAD302 4.8 28.0 1.0 O2A A:NAD302 5.0 27.9 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Photoreceptor Dehydrogenase From Drosophila Melanogaster within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg301 b:56.5 occ:1.00 O2A B:NAD302 2.4 38.4 1.0 N B:ASP188 3.1 30.6 0.5 N B:ASP188 3.2 30.7 0.5 CA B:GLY16 3.2 35.5 1.0 CG B:ASP188 3.4 31.5 0.5 N B:GLY16 3.4 36.4 1.0 O B:HOH484 3.5 45.5 1.0 O B:HOH426 3.5 33.7 1.0 CB B:ASP188 3.6 30.6 0.5 OD1 B:ASP188 3.6 30.8 0.5 CB B:THR187 3.7 29.6 1.0 OD2 B:ASP188 3.7 32.6 0.5 CA B:THR187 3.8 29.0 1.0 CB B:ASP188 3.8 30.3 0.5 PA B:NAD302 3.9 34.8 1.0 C B:THR187 4.0 29.3 1.0 CA B:ASP188 4.0 29.9 0.5 CA B:ASP188 4.1 29.7 0.5 O2N B:NAD302 4.3 38.0 1.0 CG2 B:THR187 4.4 30.7 1.0 C B:GLY15 4.5 39.7 1.0 C B:GLY16 4.6 37.1 1.0 O1A B:NAD302 4.6 36.4 1.0 O3 B:NAD302 4.7 38.8 1.0 OG1 B:THR187 4.7 28.9 1.0 O5B B:NAD302 4.8 34.5 1.0

L.Hofmann, Y.Tsybovsky, N.S.Alexander, D.Babino, N.Y.Leung, C.Montell, S.Banerjee, J.Von Lintig, K.Palczewski. Structural Insights Into the Drosophila Melanogaster Retinol Dehydrogenase, A Member of the Short-Chain Dehydrogenase/Reductase Family. Biochemistry V. 55 6545 2016.
ISSN: ISSN 1520-4995
PubMed: 27809489
DOI: 10.1021/ACS.BIOCHEM.6B00907