Sodium in PDB 7mz9: Cryo-Em Structure of Minimal TRPV1 with 1 Partially Bound Rtx

The binding sites of Sodium atom in the Cryo-Em Structure of Minimal TRPV1 with 1 Partially Bound Rtx (pdb code 7mz9). 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 Cryo-Em Structure of Minimal TRPV1 with 1 Partially Bound Rtx, PDB code: 7mz9:

Sodium binding site 1 out of 1 in the Cryo-Em Structure of Minimal TRPV1 with 1 Partially Bound Rtx


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cryo-Em Structure of Minimal TRPV1 with 1 Partially Bound Rtx within 5.0Å range: probe atom residue distance (Å) B Occ B:Na802 b:41.2 occ:1.00 O D:GLY643 2.3 62.0 1.0 O B:GLY643 2.3 61.3 1.0 O A:GLY643 2.3 61.4 1.0 O C:GLY643 2.3 60.4 1.0 C D:GLY643 3.5 62.0 1.0 C B:GLY643 3.5 61.3 1.0 C A:GLY643 3.5 61.4 1.0 C C:GLY643 3.5 60.4 1.0 CA D:GLY643 4.1 62.0 1.0 CA B:GLY643 4.1 61.3 1.0 CA C:GLY643 4.2 60.4 1.0 CA A:GLY643 4.2 61.4 1.0 SD B:MET644 4.3 63.2 1.0 SD C:MET644 4.3 63.2 1.0 SD A:MET644 4.4 63.8 1.0 SD D:MET644 4.4 63.7 1.0 N D:MET644 4.5 63.7 1.0 N B:MET644 4.5 63.2 1.0 N A:MET644 4.6 63.8 1.0 N C:MET644 4.6 63.2 1.0 CG B:MET644 4.6 63.2 1.0 CG C:MET644 4.7 63.2 1.0 CG D:MET644 4.7 63.7 1.0 CG A:MET644 4.7 63.8 1.0 CA B:MET644 4.8 63.2 1.0 CA A:MET644 4.8 63.8 1.0 CA D:MET644 4.8 63.7 1.0 CA C:MET644 4.8 63.2 1.0 O D:ILE642 4.9 62.0 1.0 O C:ILE642 5.0 60.1 1.0 O A:ILE642 5.0 62.5 1.0 O B:ILE642 5.0 61.7 1.0

K.Zhang, D.Julius, Y.Cheng. Structural Snapshots of TRPV1 Reveal Mechanism of Polymodal Functionality. Cell 2021.
ISSN: ISSN 1097-4172
PubMed: 34496225
DOI: 10.1016/J.CELL.2021.08.012