Manganese in PDB 5mm0: Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex)

The structure of Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex), PDB code: 5mm0 was solved by R.Gandini, T.Reichenbach, T.C.Tan, C.Divne, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.60 / 2.30
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	90.670, 146.320, 95.090, 90.00, 90.00, 90.00
R / Rfree (%)	21.9 / 25.8

The structure of Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex) also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Manganese atom in the Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex) (pdb code 5mm0). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex), PDB code: 5mm0:

Manganese binding site 1 out of 1 in the Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Dolichyl Phosphate Mannose Synthase in Complex with Gdp-Mannose and MN2+ (Donor Complex) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn402 b:89.5 occ:1.00 O2A A:GDD401 2.0 82.4 1.0 OE1 A:GLN93 2.0 90.8 1.0 O2B A:GDD401 2.0 92.7 1.0 OD2 A:ASP91 2.1 93.8 1.0 CD A:GLN93 3.0 88.3 1.0 PA A:GDD401 3.2 87.5 1.0 PB A:GDD401 3.2 90.9 1.0 CG A:ASP91 3.2 96.0 1.0 NH1 A:ARG202 3.4 1.0 1.0 O3A A:GDD401 3.5 0.3 1.0 CG A:GLN93 3.6 92.0 1.0 OD1 A:ASP91 3.8 95.0 1.0 O1A A:GDD401 3.9 0.4 1.0 O3B A:GDD401 4.1 0.3 1.0 NE2 A:GLN93 4.2 0.1 1.0 CB A:GLN93 4.4 88.2 1.0 O1B A:GDD401 4.4 0.0 1.0 O5' A:GDD401 4.4 87.2 1.0 CB A:ASP91 4.4 95.3 1.0 C11 A:GDD401 4.6 0.9 1.0 CZ A:ARG202 4.6 0.6 1.0 CD A:ARG202 4.7 98.4 1.0 C5' A:GDD401 4.7 92.5 1.0 OD2 A:ASP89 4.8 95.2 1.0 CB A:ARG202 4.8 98.3 1.0 CZ A:PHE199 4.9 81.1 1.0

R.Gandini, T.Reichenbach, T.C.Tan, C.Divne. Structural Basis For Dolichylphosphate Mannose Biosynthesis. Nat Commun V. 8 120 2017.
ISSN: ESSN 2041-1723
PubMed: 28743912
DOI: 10.1038/S41467-017-00187-2