Magnesium in PDB 2gms: E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase with Bound Hydrated Plp

The structure of E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase with Bound Hydrated Plp, PDB code: 2gms was solved by P.D.Cook, J.B.Thoden, H.M.Holden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	74.900, 88.100, 125.800, 90.00, 90.00, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Magnesium atom in the E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase with Bound Hydrated Plp (pdb code 2gms). 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 E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase with Bound Hydrated Plp, PDB code: 2gms:

Magnesium binding site 1 out of 1 in the E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase with Bound Hydrated Plp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase with Bound Hydrated Plp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg403 b:35.4 occ:1.00 OE2 A:GLU375 2.1 27.0 1.0 CD A:GLU375 3.1 36.2 1.0 OE1 A:GLU375 3.4 27.7 1.0 OD2 A:ASP378 3.5 42.5 1.0 CG A:ASP378 4.3 38.9 1.0 CG A:GLU375 4.4 26.6 1.0 OE1 A:GLU379 4.5 23.9 1.0 O A:GLU375 4.5 23.8 1.0 CB A:ASP378 4.6 22.3 1.0 N A:ASP378 4.8 19.4 1.0 O A:HOH517 4.8 55.9 1.0

P.D.Cook, J.B.Thoden, H.M.Holden. The Structure of Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase: A Unique Coenzyme B6-Dependent Enzyme. Protein Sci. V. 15 2093 2006.
ISSN: ISSN 0961-8368
PubMed: 16943443
DOI: 10.1110/PS.062328306