Sodium in PDB 7lqy: Structure of Squirrel TRPV1 in Apo State

The structure of Structure of Squirrel TRPV1 in Apo State also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Structure of Squirrel TRPV1 in Apo State (pdb code 7lqy). 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 Squirrel TRPV1 in Apo State, PDB code: 7lqy:

Sodium binding site 1 out of 1 in the Structure of Squirrel TRPV1 in Apo State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Squirrel TRPV1 in Apo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na911 b:80.4 occ:1.00 O B:GLY645 2.5 36.1 1.0 O D:GLY645 2.5 36.0 1.0 O A:GLY645 2.5 39.8 1.0 O C:GLY645 2.5 36.0 1.0 SD B:MET646 3.2 37.7 1.0 SD D:MET646 3.2 37.7 1.0 SD C:MET646 3.2 37.8 1.0 SD A:MET646 3.2 41.8 1.0 C B:GLY645 3.6 36.1 1.0 C D:GLY645 3.7 36.0 1.0 C A:GLY645 3.7 39.8 1.0 C C:GLY645 3.7 36.0 1.0 CG B:MET646 4.1 37.7 1.0 CG D:MET646 4.1 37.7 1.0 CG C:MET646 4.1 37.8 1.0 CG A:MET646 4.1 41.8 1.0 CA B:MET646 4.4 37.7 1.0 CA D:MET646 4.4 37.7 1.0 CA A:MET646 4.4 41.8 1.0 CA C:MET646 4.4 37.8 1.0 N B:MET646 4.4 37.7 1.0 N D:MET646 4.4 37.7 1.0 N A:MET646 4.4 41.8 1.0 N C:MET646 4.4 37.8 1.0 CA B:GLY645 4.6 36.1 1.0 CA D:GLY645 4.7 36.0 1.0 CA A:GLY645 4.7 39.8 1.0 CA C:GLY645 4.7 36.0 1.0 CB B:MET646 4.9 37.7 1.0 CE B:MET646 4.9 37.7 1.0 CB D:MET646 4.9 37.7 1.0 CE D:MET646 4.9 37.7 1.0 CE C:MET646 4.9 37.8 1.0 CB A:MET646 4.9 41.8 1.0 CE A:MET646 4.9 41.8 1.0 CB C:MET646 4.9 37.8 1.0

K.D.Nadezhdin, A.Neuberger, A.I.Sobolevsky. Extracellular Cap Domain Is An Essential Component of the TRPV1 Gating Mechanism Nat Commun 2021.
ISSN: ESSN 2041-1723