Atomistry » Sodium » PDB 6nxx-6ont » 6o6a
Atomistry »
  Sodium »
    PDB 6nxx-6ont »
      6o6a »

Sodium in PDB 6o6a: Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State (pdb code 6o6a). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State, PDB code: 6o6a:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 6o6a

Go back to Sodium Binding Sites List in 6o6a
Sodium binding site 1 out of 4 in the Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free 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 the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1302

b:53.4
occ:1.00
CH2 A:TRP867 4.1 49.0 1.0
CE1 A:TYR953 4.2 78.8 1.0
OH A:TYR953 4.5 78.8 1.0
CZ3 A:TRP867 4.5 49.0 1.0
OG A:SER956 4.5 59.2 1.0
CZ2 A:TRP867 4.5 49.0 1.0
CZ A:TYR953 4.6 78.8 1.0
CB A:THR957 4.7 59.5 1.0
CD1 A:LEU960 4.8 52.6 1.0
CA A:THR957 4.8 59.5 1.0
OG1 A:THR957 4.9 59.5 1.0
CD1 A:TYR953 5.0 78.8 1.0

Sodium binding site 2 out of 4 in 6o6a

Go back to Sodium Binding Sites List in 6o6a
Sodium binding site 2 out of 4 in the Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1302

b:53.4
occ:1.00
CH2 B:TRP867 4.1 49.0 1.0
CE1 B:TYR953 4.2 78.8 1.0
OH B:TYR953 4.5 78.8 1.0
CZ3 B:TRP867 4.5 49.0 1.0
OG B:SER956 4.5 59.2 1.0
CZ2 B:TRP867 4.5 49.0 1.0
CZ B:TYR953 4.6 78.8 1.0
CB B:THR957 4.7 59.5 1.0
CD1 B:LEU960 4.8 52.6 1.0
CA B:THR957 4.8 59.5 1.0
OG1 B:THR957 4.9 59.5 1.0
CD1 B:TYR953 5.0 78.8 1.0

Sodium binding site 3 out of 4 in 6o6a

Go back to Sodium Binding Sites List in 6o6a
Sodium binding site 3 out of 4 in the Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na1302

b:53.4
occ:1.00
CH2 C:TRP867 4.1 49.0 1.0
CE1 C:TYR953 4.2 78.8 1.0
OH C:TYR953 4.5 78.8 1.0
CZ3 C:TRP867 4.5 49.0 1.0
OG C:SER956 4.5 59.2 1.0
CZ2 C:TRP867 4.5 49.0 1.0
CZ C:TYR953 4.6 78.8 1.0
CB C:THR957 4.7 59.5 1.0
CD1 C:LEU960 4.8 52.6 1.0
CA C:THR957 4.8 59.5 1.0
OG1 C:THR957 4.9 59.5 1.0
CD1 C:TYR953 5.0 78.8 1.0

Sodium binding site 4 out of 4 in 6o6a

Go back to Sodium Binding Sites List in 6o6a
Sodium binding site 4 out of 4 in the Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Structure of the TRPM8 Cold Receptor By Single Particle Electron Cryo- Microscopy, Ligand-Free State within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na1302

b:53.4
occ:1.00
CH2 D:TRP867 4.1 49.0 1.0
CE1 D:TYR953 4.2 78.8 1.0
OH D:TYR953 4.5 78.8 1.0
CZ3 D:TRP867 4.5 49.0 1.0
OG D:SER956 4.5 59.2 1.0
CZ2 D:TRP867 4.5 49.0 1.0
CZ D:TYR953 4.6 78.8 1.0
CB D:THR957 4.7 59.5 1.0
CD1 D:LEU960 4.8 52.6 1.0
CA D:THR957 4.8 59.5 1.0
OG1 D:THR957 4.9 59.5 1.0
CD1 D:TYR953 5.0 78.8 1.0

Reference:

M.M.Diver, Y.Cheng, D.Julius. Structural Insights Into TRPM8 Inhibition and Desensitization. Science V. 365 1434 2019.
ISSN: ESSN 1095-9203
PubMed: 31488702
DOI: 10.1126/SCIENCE.AAX6672
Page generated: Tue Dec 15 12:41:03 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy