Sodium in PDB 8ehe: Structure of Tannerella Forsythia Potempin C in Complex with Mirolase

The structure of Structure of Tannerella Forsythia Potempin C in Complex with Mirolase, PDB code: 8ehe was solved by F.X.Gomis-Ruth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.87 / 1.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	45.65, 113.36, 50.2, 90, 112.69, 90
R / Rfree (%)	13.9 / 14.8

The structure of Structure of Tannerella Forsythia Potempin C in Complex with Mirolase also contains other interesting chemical elements:

Calcium

(Ca)

6 atoms

The binding sites of Sodium atom in the Structure of Tannerella Forsythia Potempin C in Complex with Mirolase (pdb code 8ehe). 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 Tannerella Forsythia Potempin C in Complex with Mirolase, PDB code: 8ehe:

Sodium binding site 1 out of 1 in the Structure of Tannerella Forsythia Potempin C in Complex with Mirolase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Tannerella Forsythia Potempin C in Complex with Mirolase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na601 b:18.3 occ:0.44 O A:HOH945 2.4 28.9 1.0 OG A:SER354 2.5 15.3 1.0 O A:HOH1102 2.5 44.8 1.0 O A:HOH966 2.6 20.9 1.0 O A:HOH986 3.0 35.9 1.0 HB3 A:SER354 3.5 13.3 1.0 CB A:SER354 3.5 12.4 1.0 O A:HOH1168 3.6 37.4 1.0 HA A:SER354 3.7 8.8 1.0 O A:HOH715 3.9 27.6 1.0 O A:HOH1087 4.0 17.3 1.0 O A:HOH932 4.1 39.9 1.0 O A:ASP351 4.1 12.5 1.0 CA A:SER354 4.2 10.7 1.0 HB2 A:SER354 4.4 11.6 1.0 O A:HOH941 4.4 16.9 1.0 OD1 A:ASP387 4.5 22.2 1.0 H A:SER354 4.5 11.8 1.0 O A:HOH758 4.5 20.8 1.0 N A:SER354 4.7 10.7 1.0 HA A:ASP351 4.9 10.6 1.0

M.Ksiazek, T.Goulas, D.Mizgalska, A.Rodriguez-Banqueri, U.Eckhard, F.Veillard, I.Waligorska, M.Benedyk-Machaczka, A.M.Sochaj-Gregorczyk, M.Madej, I.B.Thogersen, J.J.Enghild, A.Cuppari, J.L.Arolas, I.De Diego, M.Lopez-Pelegrin, I.Garcia-Ferrer, T.Guevara, V.Dive, M.L.Zani, T.Moreau, J.Potempa, F.X.Gomis-Ruth. A Unique Network of Attack, Defence and Competence on the Outer Membrane of the Periodontitis Pathogen Tannerella Forsythia Chem Sci 2022.
ISSN: ESSN 2041-6539