Sodium in PDB 6hlm: Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+

All present enzymatic activity of Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+:
1.6.5.11;

The structure of Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+, PDB code: 6hlm was solved by S.Gerhardt, T.Friedrich, O.Einsle, E.Gnandt, M.Schulte, D.Fiegen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	51.49 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	92.690, 63.293, 124.192, 90.00, 107.18, 90.00
R / Rfree (%)	17.6 / 19.7

The structure of Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+ also contains other interesting chemical elements:

Iron

(Fe)

12 atoms

The binding sites of Sodium atom in the Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+ (pdb code 6hlm). 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 Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+, PDB code: 6hlm:

Sodium binding site 1 out of 1 in the Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Variant G129D of Nuoef From Aquifex Aeolicus Bound to Nad+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Na504 b:30.5 occ:1.00 OD1 B:ASP94 2.6 23.1 1.0 O B:HOH708 2.7 23.9 1.0 O B:HOH674 2.8 19.7 1.0 O B:ALA179 2.8 24.4 1.0 OD2 B:ASP94 3.2 26.6 1.0 CG B:ASP94 3.2 23.3 1.0 O B:HOH668 3.4 30.3 1.0 N B:ALA179 3.6 27.4 1.0 C B:ALA179 3.6 25.3 1.0 CB B:CYS182 3.9 21.6 1.0 CB B:ARG135 4.1 18.3 1.0 CA B:ALA179 4.1 27.2 1.0 CA B:GLY176 4.2 18.8 1.0 CA B:ARG135 4.2 18.1 1.0 N B:GLY178 4.3 20.6 1.0 N B:ALA177 4.4 20.9 1.0 C B:GLY178 4.5 31.3 1.0 CE1 B:TYR133 4.5 21.5 1.0 OG B:SER96 4.5 27.1 1.0 N B:TYR180 4.6 20.4 1.0 OH B:TYR133 4.6 23.1 1.0 C B:GLY176 4.7 22.0 1.0 CA B:GLY178 4.7 21.2 1.0 CB B:ASP94 4.7 20.9 1.0 CB B:ALA179 4.8 28.4 1.0 CA B:CYS182 4.8 20.5 1.0 O B:ASP94 4.9 23.5 1.0 SG B:CYS182 4.9 26.3 1.0 N B:GLY136 4.9 19.1 1.0 N B:CYS182 5.0 18.4 1.0 CA B:TYR180 5.0 20.1 1.0

M.Schulte, K.Frick, E.Gnandt, S.Jurkovic, S.Burschel, R.Labatzke, K.Aierstock, D.Fiegen, D.Wohlwend, S.Gerhardt, O.Einsle, T.Friedrich. A Mechanism to Prevent Production of Reactive Oxygen Species By Escherichia Coli Respiratory Complex I. Nat Commun V. 10 2551 2019.
ISSN: ESSN 2041-1723
PubMed: 31186428
DOI: 10.1038/S41467-019-10429-0