Sodium in PDB 6yz0: Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd)

The structure of Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd), PDB code: 6yz0 was solved by A.Sula, L.G.Sait, D.Hollingworth, B.A.Wallace, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	103.94 / 2.30
Space group	I 4 2 2
Cell size a, b, c (Å), α, β, γ (°)	110.328, 110.328, 207.876, 90.00, 90.00, 90.00
R / Rfree (%)	24.7 / 26.1

The binding sites of Sodium atom in the Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd) (pdb code 6yz0). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd), PDB code: 6yz0:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:0.7 occ:0.25 C19 A:CD0306 3.9 0.5 0.8 C14 A:CD0306 4.6 0.3 0.8 C10 A:CD0306 4.7 0.3 0.8 O A:THR176 4.8 58.6 1.0

Sodium binding site 2 out of 3 in the Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:0.3 occ:0.25 NA A:NA303 2.4 0.6 0.3 N A:SER179 4.4 55.3 1.0 OG A:SER179 4.6 58.4 1.0 OE2 A:GLU178 4.7 63.9 1.0

Sodium binding site 3 out of 3 in the Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Full Length Open-Form Sodium Channel Navms F208L in Complex with Cannabidiol (Cbd) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na303 b:0.6 occ:0.25 NA A:NA302 2.4 0.3 0.3 OG A:SER179 3.7 58.4 1.0 OE2 A:GLU178 4.5 63.9 1.0 CB A:SER179 4.8 57.0 1.0 N A:SER179 4.9 55.3 1.0 CA A:SER179 5.0 55.9 1.0

L.G.Sait, A.Sula, M.R.Ghovanloo, D.Hollingworth, P.C.Ruben, B.A.Wallace. Cannabidiol Interactions with Voltage-Gated Sodium Channels. Elife V. 9 2020.
ISSN: ESSN 2050-084X
PubMed: 33089780
DOI: 10.7554/ELIFE.58593