Sodium in PDB 7o5z: Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State

All present enzymatic activity of Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State:
5.4.2.8;

The structure of Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State, PDB code: 7o5z was solved by S.Ramon-Maiques, A.Briso-Montiano, F.Del Cano-Ochoa, A.Vilas, B.Perez, V.Rubio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	61.43 / 2.07
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	70.934, 70.934, 363.616, 90, 90, 120
R / Rfree (%)	20.4 / 22.4

The structure of Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Magnesium	(Mg)	4 atoms

The binding sites of Sodium atom in the Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State (pdb code 7o5z). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State, PDB code: 7o5z:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na307 b:55.5 occ:1.00 OD2 A:ASP48 2.1 51.0 1.0 O A:HOH524 2.2 57.7 1.0 O A:HOH473 2.3 55.5 1.0 O A:HOH487 2.3 49.6 1.0 O A:HOH505 2.3 46.5 1.0 O A:HOH465 2.4 52.5 1.0 CG A:ASP48 3.2 43.3 1.0 OD1 A:ASP48 3.7 42.1 1.0 O1 A:GOL303 4.0 59.0 1.0 O A:HOH486 4.5 38.8 1.0 CB A:ASP48 4.5 41.4 1.0 HB3 A:ASP48 4.5 49.6 1.0 H32 A:GOL303 4.5 76.2 1.0 HB2 A:ASP48 4.8 49.6 1.0 H11 A:GOL303 4.8 85.3 1.0 CB A:GLU50 4.8 40.4 1.0 C1 A:GOL303 4.9 71.1 1.0 O A:HOH461 5.0 48.2 1.0

Sodium binding site 2 out of 2 in the Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human Phosphomannomutase 2 (PMM2) with Mutation T237M in Apo State within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1007 b:49.8 occ:1.00 O B:HOH1107 2.3 45.6 1.0 OE2 B:GLU197 2.3 46.9 1.0 O B:HOH1210 2.3 48.8 1.0 O B:HOH1102 2.3 42.0 1.0 O B:HOH1118 2.4 47.2 1.0 HB2 B:ARG194 3.4 46.3 1.0 CD B:GLU197 3.5 43.7 1.0 HA B:ARG194 3.6 42.7 1.0 HG3 B:GLU197 3.8 49.6 1.0 HG2 B:GLU197 4.0 49.6 1.0 CG B:GLU197 4.0 41.3 1.0 O B:ARG194 4.1 36.7 1.0 HO3 B:GOL1004 4.1 68.7 1.0 HD21 B:ASN198 4.1 64.5 1.0 CB B:ARG194 4.1 38.6 1.0 CA B:ARG194 4.2 35.6 1.0 OD1 B:ASN198 4.4 50.4 1.0 HB3 B:ARG194 4.4 46.3 1.0 OE1 B:GLU197 4.5 44.2 1.0 O B:HOH1144 4.5 51.6 1.0 C B:ARG194 4.6 36.1 1.0 O B:HOH1196 4.7 42.5 1.0 HO2 B:GOL1004 4.7 65.6 1.0 ND2 B:ASN198 4.7 53.8 1.0 O3 B:GOL1004 4.9 57.3 1.0 CG B:ASN198 4.9 51.3 1.0

A.Briso-Montiano, F.Del Cano-Ochoa, A.Vilas, A.Velazquez-Campoy, V.Rubio, B.Perez, S.Ramon-Maiques. Insight on Molecular Pathogenesis and Pharmacochaperoning Potential in Phosphomannomutase 2 Deficiency, Provided By Novel Human Phosphomannomutase 2 Structures. J Inherit Metab Dis V. 45 318 2022.
ISSN: ISSN 1573-2665
PubMed: 34859900
DOI: 10.1002/JIMD.12461