Sodium in PDB 7kbu: Structure of Hevin Fs-Ec

The structure of Structure of Hevin Fs-Ec, PDB code: 7kbu was solved by M.Machius, S.Fan, G.Rudenko, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.00 / 2.27
Space group	I 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	57.657, 132.289, 149.225, 90, 90, 90
R / Rfree (%)	18.7 / 23.8

The structure of Structure of Hevin Fs-Ec also contains other interesting chemical elements:

Chlorine	(Cl)	4 atoms
Calcium	(Ca)	6 atoms

The binding sites of Sodium atom in the Structure of Hevin Fs-Ec (pdb code 7kbu). 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 Hevin Fs-Ec, PDB code: 7kbu:

Sodium binding site 1 out of 1 in the Structure of Hevin Fs-Ec


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Hevin Fs-Ec within 5.0Å range: probe atom residue distance (Å) B Occ B:Na708 b:29.4 occ:1.00 O B:PHE518 2.2 19.9 1.0 O2 B:FMT706 2.3 25.5 1.0 O B:HOH850 2.4 31.6 1.0 O B:ILE521 2.5 22.3 1.0 O B:HOH829 2.5 20.6 1.0 HD2 B:PHE523 2.8 27.8 1.0 HE2 B:PHE523 2.9 35.6 1.0 CD2 B:PHE523 3.2 23.0 1.0 C B:FMT706 3.2 30.1 1.0 CE2 B:PHE523 3.2 29.6 1.0 O1 B:FMT706 3.3 39.8 1.0 HA B:GLN522 3.3 31.3 1.0 H B:PHE523 3.4 25.7 1.0 C B:PHE518 3.4 19.7 1.0 C B:ILE521 3.6 25.9 1.0 HA B:GLU519 3.8 20.8 1.0 HB3 B:PHE518 4.0 22.2 1.0 HA B:PHE518 4.1 21.9 1.0 N B:PHE523 4.1 21.3 1.0 CA B:GLN522 4.1 25.9 1.0 H B:FMT706 4.2 36.3 1.0 CG B:PHE523 4.2 28.9 1.0 CA B:PHE518 4.3 18.2 1.0 CZ B:PHE523 4.3 27.4 1.0 N B:GLN522 4.3 24.4 1.0 O B:GLU519 4.4 17.8 1.0 N B:GLU519 4.4 18.1 1.0 CA B:GLU519 4.4 17.2 1.0 C B:GLU519 4.5 17.2 1.0 C B:GLN522 4.6 26.4 1.0 H B:ILE521 4.6 21.4 1.0 HB B:ILE521 4.6 23.0 1.0 CB B:PHE518 4.6 18.4 1.0 HB2 B:PHE523 4.7 25.8 1.0 CA B:ILE521 4.7 18.3 1.0 N B:ILE521 4.7 17.7 1.0 HZ B:PHE523 4.7 33.0 1.0 O A:MET623 4.7 19.4 1.0 OE1 B:GLN522 4.7 40.5 1.0 HE22 B:GLN522 4.8 54.0 1.0 OE1 A:GLU624 4.8 38.1 1.0 CB B:PHE523 4.9 21.4 1.0 CD B:GLN522 4.9 37.7 1.0 NE2 B:GLN522 4.9 44.9 1.0

S.Fan, S.P.Gangwar, M.Machius, G.Rudenko. Interplay Between Hevin, Sparc, and Mdgas: Modulators of Neurexin-Neuroligin Transsynaptic Bridges Structure 2021.
ISSN: ISSN 0969-2126
DOI: 10.1016/J.STR.2021.01.003