Sodium in PDB 8t1e: Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd

The binding sites of Sodium atom in the Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd (pdb code 8t1e). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd, PDB code: 8t1e:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1211 b:101.6 occ:1.00 O A:GLY679 4.1 46.0 1.0 O B:GLY679 4.1 43.7 1.0 O C:GLY679 4.1 45.9 1.0 O D:GLY679 4.1 43.6 1.0 CA A:GLY679 4.8 46.0 1.0 CA B:GLY679 4.8 43.7 1.0 CA C:GLY679 4.8 45.9 1.0 CA D:GLY679 4.9 43.6 1.0 C A:GLY679 4.9 46.0 1.0 C B:GLY679 4.9 43.7 1.0 C C:GLY679 4.9 45.9 1.0 C D:GLY679 4.9 43.6 1.0

Sodium binding site 2 out of 3 in the Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1212 b:24.4 occ:1.00 NA A:NA1213 2.2 21.3 1.0 OD1 A:ASP682 4.3 57.1 1.0 OD1 B:ASP682 4.4 54.9 1.0 OD1 C:ASP682 4.4 61.0 1.0 OD1 D:ASP682 4.4 54.6 1.0 OD2 A:ASP682 4.9 57.1 1.0 OD2 B:ASP682 4.9 54.9 1.0 OD2 C:ASP682 4.9 61.0 1.0 OD2 D:ASP682 4.9 54.6 1.0

Sodium binding site 3 out of 3 in the Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Closed-State Cryo-Em Structure of Full-Length Human TRPV4 in the Presence of 4A-Pdd within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1213 b:21.3 occ:1.00 NA A:NA1212 2.2 24.4 1.0 OD2 A:ASP682 3.9 57.1 1.0 OD2 B:ASP682 3.9 54.9 1.0 OD2 C:ASP682 3.9 61.0 1.0 OD2 D:ASP682 3.9 54.6 1.0 OD1 A:ASP682 4.4 57.1 1.0 OD1 B:ASP682 4.4 54.9 1.0 OD1 C:ASP682 4.4 61.0 1.0 OD1 D:ASP682 4.4 54.6 1.0 CG A:ASP682 4.6 57.1 1.0 CG B:ASP682 4.6 54.9 1.0 CG C:ASP682 4.6 61.0 1.0 CG D:ASP682 4.6 54.6 1.0

K.D.Nadezhdin, I.A.Talyzina, A.Parthasarathy, A.Neuberger, D.X.Zhang, A.I.Sobolevsky. Structure of Human TRPV4 in Complex with Gtpase Rhoa. Nat Commun V. 14 3733 2023.
ISSN: ESSN 2041-1723
PubMed: 37353478
DOI: 10.1038/S41467-023-39346-Z