Sodium in PDB 6q4x: Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana

The structure of Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana, PDB code: 6q4x was solved by L.F.Sobala, A.Males, L.M.Bastidas, T.Ward, M.F.Sernee, J.E.Ralton, T.L.Nero, S.Cobbold, J.Kloehn, M.Viera-Lara, L.Stanton, E.Hanssen, M.W.Parker, S.J.Williams, M.J.Mcconville, G.J.Davies, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	72.74 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.567, 98.607, 107.402, 90.00, 90.00, 90.00
R / Rfree (%)	14 / 21.1

The binding sites of Sodium atom in the Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana (pdb code 6q4x). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana, PDB code: 6q4x:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:31.9 occ:1.00 O B:GLY115 2.4 21.8 1.0 O A:GLU179 2.4 25.3 1.0 O B:HOH746 2.5 50.5 1.0 O A:HOH721 2.6 53.2 1.0 C B:GLY115 3.4 21.8 1.0 C A:GLU179 3.5 22.7 1.0 CA B:GLY115 3.8 25.6 1.0 O B:HOH556 3.9 28.7 1.0 OD1 A:ASP180 4.1 29.7 1.0 CA A:ASP180 4.2 19.6 1.0 N A:ASP180 4.2 27.7 1.0 CB A:GLU179 4.2 37.4 0.8 CB A:GLU179 4.3 29.9 0.2 CA A:GLU179 4.4 28.3 0.8 CA A:GLU179 4.4 27.0 0.2 O A:HOH510 4.6 43.7 1.0 N B:GLY116 4.6 22.5 1.0 O A:HOH722 4.9 41.3 1.0 CG2 A:THR182 5.0 24.5 1.0

Sodium binding site 2 out of 2 in the Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Mpt-2, A Gdp-Man-Dependent Mannosyltransferase From Leishmania Mexicana within 5.0Å range: probe atom residue distance (Å) B Occ B:Na401 b:46.6 occ:1.00 O B:GLU179 2.5 26.9 1.0 O A:GLY115 2.6 23.0 1.0 C B:GLU179 3.4 25.2 1.0 O B:HOH604 3.5 55.5 1.0 C A:GLY115 3.5 19.4 1.0 CA A:GLY115 3.8 21.4 1.0 O B:HOH764 3.9 43.1 1.0 N B:ASP180 4.1 21.7 1.0 CB B:GLU179 4.2 24.9 0.3 CA B:ASP180 4.2 25.6 1.0 CB B:GLU179 4.2 28.8 0.7 OD1 B:ASP180 4.3 32.3 1.0 CA B:GLU179 4.4 23.4 0.3 CA B:GLU179 4.4 23.0 0.7 N A:GLY116 4.7 21.3 1.0 O A:HOH519 4.9 48.1 1.0

M.F.Sernee, J.E.Ralton, T.L.Nero, L.F.Sobala, J.Kloehn, M.A.Vieira-Lara, S.A.Cobbold, L.Stanton, D.E.V.Pires, E.Hanssen, A.Males, T.Ward, L.M.Bastidas, P.L.Van Der Peet, M.W.Parker, D.B.Ascher, S.J.Williams, G.J.Davies, M.J.Mcconville. A Family of Dual-Activity Glycosyltransferase-Phosphorylases Mediates Mannogen Turnover and Virulence in Leishmania Parasites. Cell Host Microbe V. 26 385 2019.
ISSN: ESSN 1934-6069
PubMed: 31513773
DOI: 10.1016/J.CHOM.2019.08.009