Magnesium in PDB 2qb8: Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex

All present enzymatic activity of Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex:
3.6.1.11;

The structure of Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex, PDB code: 2qb8 was solved by S.A.White, E.Ugochukwu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.50 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	78.134, 82.847, 121.761, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 23.3

The binding sites of Magnesium atom in the Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex (pdb code 2qb8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex, PDB code: 2qb8:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:4.8 occ:1.00 OD2 A:ASP41 2.1 9.8 1.0 NE2 A:HIS148 2.1 11.0 1.0 O A:HOH874 2.3 26.1 1.0 OD1 A:ASP127 2.3 9.0 1.0 O A:HOH772 2.6 40.4 1.0 CE1 A:HIS148 3.0 11.9 1.0 CG A:ASP41 3.0 10.4 1.0 CG A:ASP127 3.1 11.3 1.0 CD2 A:HIS148 3.2 12.1 1.0 OD2 A:ASP127 3.3 11.0 1.0 CB A:ASP41 3.4 10.4 1.0 CE1 A:HIS149 3.9 16.2 1.0 CB A:CYS169 4.1 13.0 1.0 N A:CYS169 4.1 12.6 1.0 OD1 A:ASP41 4.1 10.3 1.0 ND1 A:HIS148 4.1 10.4 1.0 CG A:HIS148 4.3 12.0 1.0 OD2 A:ASP202 4.3 12.4 1.0 NE2 A:HIS149 4.4 14.8 1.0 CB A:ASP127 4.5 11.1 1.0 O A:HOH653 4.6 33.8 1.0 OD2 A:ASP39 4.6 14.8 1.0 CA A:CYS169 4.7 12.7 1.0 ND1 A:HIS149 4.8 13.2 1.0 CA A:ASP41 4.9 10.3 1.0 CA A:ASP127 5.0 10.9 1.0

Magnesium binding site 2 out of 2 in the Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Saccharomyces Cerevisiae Cytosolic Exopolyphosphatase, Atp Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:9.7 occ:1.00 OD2 B:ASP41 2.1 11.7 1.0 NE2 B:HIS148 2.1 17.5 1.0 OD1 B:ASP127 2.2 14.0 1.0 O B:HOH657 2.2 15.2 1.0 O B:HOH485 2.5 38.4 1.0 CE1 B:HIS148 2.9 16.6 1.0 CG B:ASP127 3.0 14.6 1.0 CG B:ASP41 3.1 14.0 1.0 OD2 B:ASP127 3.2 13.1 1.0 CD2 B:HIS148 3.2 15.9 1.0 CB B:ASP41 3.5 13.1 1.0 CE1 B:HIS149 4.0 20.4 1.0 CB B:CYS169 4.0 13.8 1.0 N B:CYS169 4.0 13.1 1.0 ND1 B:HIS148 4.1 15.7 1.0 OD1 B:ASP41 4.2 11.9 1.0 CG B:HIS148 4.3 16.0 1.0 OD2 B:ASP202 4.3 16.6 1.0 CB B:ASP127 4.4 15.2 1.0 NE2 B:HIS149 4.6 21.5 1.0 CA B:CYS169 4.7 13.3 1.0 OD2 B:ASP39 4.8 17.8 1.0 CA B:ASP127 4.8 15.2 1.0 ND1 B:HIS149 4.9 19.8 1.0 CA B:ASP41 4.9 14.1 1.0 O B:HOH559 4.9 37.8 1.0

E.Ugochukwu, A.L.Lovering, O.C.Mather, T.W.Young, S.A.White. The Crystal Structure of the Cytosolic Exopolyphosphatase From Saccharomyces Cerevisiae Reveals the Basis For Substrate Specificity. J.Mol.Biol. V. 371 1007 2007.
ISSN: ISSN 0022-2836
PubMed: 17599355
DOI: 10.1016/J.JMB.2007.05.066