Sodium in PDB 4ha4: Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol

All present enzymatic activity of Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol:
3.2.1.23;

The structure of Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol, PDB code: 4ha4 was solved by A.A.Trofimov, K.M.Polyakov, A.V.Tikhonov, E.Y.Bezsudnova, P.V.Dorovatovskii, V.M.Gumerov, N.V.Ravin, K.G.Skryabin, V.O.Popov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.83 / 1.37
Space group	P 42 21 2
Cell size a, b, c (Å), α, β, γ (°)	84.120, 84.120, 166.270, 90.00, 90.00, 90.00
R / Rfree (%)	13 / 16.3

The binding sites of Sodium atom in the Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol (pdb code 4ha4). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol, PDB code: 4ha4:

Sodium binding site 1 out of 1 in the Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Beta-Glycosidase From Acidilobus Saccharovorans in Complex with Glycerol within 5.0Å range: probe atom residue distance (Å) B Occ A:Na501 b:11.1 occ:0.50 O A:HOH652 2.3 11.1 1.0 O A:HOH613 2.4 11.0 1.0 O A:ASP393 2.6 10.8 1.0 C A:ASP393 3.6 9.8 1.0 CA A:TYR394 4.0 10.0 1.0 O A:HOH609 4.1 13.2 1.0 CG A:PRO397 4.2 10.1 1.0 N A:TYR394 4.2 9.6 1.0 O A:TYR394 4.3 11.2 1.0 CB A:ASP393 4.5 10.5 1.0 C A:TYR394 4.5 10.8 1.0 O A:GLY392 4.5 11.2 1.0 CD A:PRO397 4.6 9.5 1.0 OD2 A:ASP393 4.6 11.2 1.0 CA A:ASP393 4.7 9.9 1.0 CD1 A:TYR394 4.7 11.0 1.0 CG A:ASP393 4.9 10.5 1.0

A.A.Trofimov, K.M.Polyakov, A.V.Tikhonov, E.Y.Bezsudnova, P.V.Dorovatovskii, V.M.Gumerov, N.V.Ravin, K.G.Skryabin, V.O.Popov. Structures of Beta-Glycosidase From Acidilobus Saccharovorans in Complexes with Tris and Glycerol. Dokl.Biochem.Biophys. V. 449 99.
ISSN: ISSN 1607-6729
PubMed: 23657657
DOI: 10.1134/S1607672913020129