Sodium in PDB 6bfg: Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase

All present enzymatic activity of Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase:
1.1.99.31;

The structure of Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase, PDB code: 6bfg was solved by N.Sukumar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.40 / 2.20
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	123.358, 129.879, 143.260, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 24

The binding sites of Sodium atom in the Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase (pdb code 6bfg). 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 Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase, PDB code: 6bfg:

Sodium binding site 1 out of 1 in the Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Monotopic Membrane Protein (S)-Mandelate Dehydrogenase within 5.0Å range: probe atom residue distance (Å) B Occ B:Na405 b:46.5 occ:1.00 H B:GLU116 2.2 48.1 1.0 HB2 B:GLU116 2.6 54.3 1.0 HG3 B:GLU116 2.7 75.4 1.0 HB2 B:SER114 2.8 51.7 1.0 HB B:ILE115 3.0 45.7 1.0 HD3 B:LYS144 3.0 63.7 1.0 N B:GLU116 3.0 40.0 1.0 HG B:SER114 3.1 42.7 1.0 CG B:GLU116 3.2 62.7 1.0 CB B:GLU116 3.2 45.1 1.0 OG B:SER114 3.3 35.5 1.0 CD B:GLU116 3.4 70.8 1.0 O B:HOH571 3.4 39.0 1.0 H B:ILE115 3.4 35.9 1.0 CB B:SER114 3.5 43.0 1.0 N B:ILE115 3.7 29.8 1.0 CA B:GLU116 3.7 42.8 1.0 HD2 B:LYS144 3.7 63.7 1.0 OE1 B:GLU116 3.7 70.2 1.0 CD B:LYS144 3.8 53.0 1.0 OE2 B:GLU116 3.8 69.3 1.0 CB B:ILE115 3.9 38.0 1.0 C B:ILE115 4.0 40.5 1.0 CA B:ILE115 4.1 26.8 1.0 HB3 B:GLU116 4.1 54.3 1.0 HG2 B:GLU116 4.1 75.4 1.0 H B:ASP117 4.2 43.8 1.0 HB3 B:SER114 4.2 51.7 1.0 HB3 B:LYS144 4.2 52.9 1.0 C B:SER114 4.2 34.1 1.0 HE2 B:LYS144 4.3 70.0 1.0 HA B:GLU116 4.4 51.5 1.0 HG22 B:ILE115 4.4 41.9 1.0 CA B:SER114 4.5 31.3 1.0 HD12 B:ILE115 4.6 43.8 1.0 CE B:LYS144 4.6 58.2 1.0 OD1 B:ASN207 4.6 35.3 1.0 HG13 B:ILE115 4.7 44.1 1.0 CG2 B:ILE115 4.7 34.8 1.0 HA B:SER114 4.7 37.7 1.0 N B:ASP117 4.7 36.4 1.0 C B:GLU116 4.8 38.0 1.0 CG1 B:ILE115 4.8 36.6 1.0 CG B:LYS144 4.9 55.7 1.0 CB B:LYS144 4.9 44.0 1.0 HG21 B:ILE115 5.0 41.9 1.0 O B:SER114 5.0 30.7 1.0 O B:HOH531 5.0 45.8 1.0 HE3 B:LYS144 5.0 70.0 1.0

N.Sukumar, S.Liu, W.Li, F.S.Mathews, B.Mitra, P.Kandavelu. Structure of the Monotopic Membrane Protein (S)-Mandelate Dehydrogenase at 2.2 Angstrom Resolution. Biochimie V. 154 45 2018.
ISSN: ISSN 1638-6183
PubMed: 30071260
DOI: 10.1016/J.BIOCHI.2018.07.017