Magnesium in PDB 7msp: Suns Glycosin S-Glycosyltransferase

The structure of Suns Glycosin S-Glycosyltransferase, PDB code: 7msp was solved by N.Garg, S.K.Nair, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.89 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	58.85, 101.92, 135.83, 90, 90, 90
R / Rfree (%)	20.5 / 25.6

The binding sites of Magnesium atom in the Suns Glycosin S-Glycosyltransferase (pdb code 7msp). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Suns Glycosin S-Glycosyltransferase, PDB code: 7msp:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Suns Glycosin S-Glycosyltransferase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Suns Glycosin S-Glycosyltransferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:44.3 occ:1.00 O A:HOH634 1.9 35.0 1.0 O2A A:UPG500 2.2 44.4 1.0 OD1 A:ASP138 2.2 34.4 1.0 OD2 A:ASP138 2.2 40.7 1.0 O2B A:UPG500 2.2 41.5 1.0 CG A:ASP138 2.5 42.3 1.0 NE2 A:HIS219 2.6 44.6 1.0 PB A:UPG500 3.4 49.0 1.0 CE1 A:HIS219 3.5 51.8 1.0 CD2 A:HIS219 3.5 40.4 1.0 PA A:UPG500 3.5 45.3 1.0 NZ A:LYS232 3.9 60.7 1.0 CB A:ASP138 4.0 41.3 1.0 OD2 A:ASP136 4.1 30.3 1.0 O3A A:UPG500 4.1 52.3 1.0 CB A:ASP136 4.2 30.0 1.0 O3B A:UPG500 4.2 56.3 1.0 O2' A:UPG500 4.2 42.0 1.0 C1' A:UPG500 4.2 60.4 1.0 O1A A:UPG500 4.4 51.6 1.0 C5C A:UPG500 4.4 36.1 1.0 O A:HOH677 4.4 40.6 1.0 CG A:ASP136 4.5 32.6 1.0 ND1 A:HIS219 4.6 50.1 1.0 O5C A:UPG500 4.6 39.8 1.0 CG A:HIS219 4.6 46.3 1.0 CA A:GLY221 4.7 52.4 1.0 O1B A:UPG500 4.7 51.4 1.0 C2' A:UPG500 4.8 46.6 1.0 N A:ASP138 4.8 31.6 1.0 CA A:ASP138 4.8 38.4 1.0

Magnesium binding site 2 out of 2 in the Suns Glycosin S-Glycosyltransferase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Suns Glycosin S-Glycosyltransferase within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg501 b:38.2 occ:1.00 OD2 B:ASP138 2.0 33.2 1.0 O2B B:UPG502 2.1 41.7 1.0 O2A B:UPG502 2.1 35.2 1.0 O B:HOH638 2.1 31.5 1.0 OD1 B:ASP138 2.3 31.3 1.0 NE2 B:HIS219 2.3 39.1 1.0 CG B:ASP138 2.5 31.5 1.0 CD2 B:HIS219 3.3 39.2 1.0 PB B:UPG502 3.3 38.5 1.0 CE1 B:HIS219 3.3 43.1 1.0 PA B:UPG502 3.4 35.7 1.0 O3A B:UPG502 3.9 43.5 1.0 CB B:ASP138 4.0 35.1 1.0 NZ B:LYS232 4.0 52.9 1.0 O3B B:UPG502 4.1 48.9 1.0 C1' B:UPG502 4.1 49.4 1.0 O1A B:UPG502 4.3 43.1 1.0 C2' B:UPG502 4.3 43.7 1.0 CA B:GLY221 4.3 51.9 1.0 OD2 B:ASP136 4.3 34.5 1.0 ND1 B:HIS219 4.4 45.3 1.0 CG B:HIS219 4.4 43.4 1.0 CB B:ASP136 4.5 29.4 1.0 O B:HOH703 4.5 31.4 1.0 O2' B:UPG502 4.6 41.1 1.0 O1B B:UPG502 4.6 42.9 1.0 O5C B:UPG502 4.6 33.7 1.0 C5C B:UPG502 4.7 31.7 1.0 CE B:LYS232 4.7 58.2 1.0 CG B:ASP136 4.9 33.0 1.0 CA B:ASP138 4.9 35.7 1.0 N B:ASP138 5.0 35.6 1.0 CD B:LYS232 5.0 54.0 1.0

D.Fujinami, C.V.Garcia De Gonzalo, S.Biswas, Y.Hao, H.Wang, N.Garg, T.Lukk, S.K.Nair, W.A.Van Der Donk. Structural and Mechanistic Investigations of Protein S-Glycosyltransferases. Cell Chem Biol V. 28 1740 2021.
ISSN: ESSN 2451-9456
PubMed: 34283964
DOI: 10.1016/J.CHEMBIOL.2021.06.009