Sodium in PDB 8bdc: Human Apo TRPM8 in A Closed State (Composite Map)

The binding sites of Sodium atom in the Human Apo TRPM8 in A Closed State (Composite Map) (pdb code 8bdc). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 8 binding sites of Sodium where determined in the Human Apo TRPM8 in A Closed State (Composite Map), PDB code: 8bdc:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Sodium binding site 1 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1205 b:33.4 occ:1.00 CB A:LEU970 3.9 19.8 1.0 N A:LEU971 4.1 19.5 1.0 C A:LEU970 4.4 17.5 1.0 CA A:LEU971 4.5 11.6 1.0 O A:THR967 4.5 26.9 1.0 CB A:LEU971 4.6 18.4 1.0 CG2 A:THR967 4.7 24.9 1.0 CD1 A:LEU970 4.7 24.7 1.0 CA A:LEU970 4.8 7.9 1.0 O A:LEU970 4.8 27.6 1.0 CA A:THR967 4.9 19.8 1.0 CG A:LEU970 4.9 25.0 1.0 CD1 A:LEU971 5.0 26.2 1.0

Sodium binding site 2 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1206 b:43.2 occ:1.00 OG A:SER966 3.7 32.5 1.0 CH2 A:TRP877 3.9 30.0 1.0 OG1 A:THR967 4.0 32.5 1.0 CD1 A:TYR963 4.1 44.3 1.0 CZ2 A:TRP877 4.1 26.4 1.0 CE1 A:TYR963 4.2 44.4 1.0 CZ3 A:TRP877 4.5 29.7 1.0 CB A:SER966 4.6 21.5 1.0 N A:THR967 4.6 23.1 1.0 O A:TYR963 4.7 35.8 1.0 CE2 A:TRP877 4.7 24.7 1.0 CD1 A:LEU970 4.8 24.7 1.0 CA A:THR967 4.8 19.8 1.0 CB A:THR967 5.0 21.6 1.0

Sodium binding site 3 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1205 b:33.4 occ:1.00 CB B:LEU970 3.9 19.8 1.0 N B:LEU971 4.1 19.5 1.0 C B:LEU970 4.4 17.5 1.0 CA B:LEU971 4.5 11.6 1.0 O B:THR967 4.5 26.9 1.0 CB B:LEU971 4.6 18.4 1.0 CG2 B:THR967 4.7 24.9 1.0 CD1 B:LEU970 4.7 24.7 1.0 CA B:LEU970 4.8 7.9 1.0 O B:LEU970 4.8 27.6 1.0 CA B:THR967 4.9 19.8 1.0 CG B:LEU970 4.9 25.0 1.0 CD1 B:LEU971 4.9 26.2 1.0

Sodium binding site 4 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1206 b:43.2 occ:1.00 OG B:SER966 3.7 32.5 1.0 CH2 B:TRP877 3.9 30.0 1.0 OG1 B:THR967 4.0 32.5 1.0 CD1 B:TYR963 4.1 44.3 1.0 CZ2 B:TRP877 4.1 26.4 1.0 CE1 B:TYR963 4.2 44.4 1.0 CZ3 B:TRP877 4.5 29.7 1.0 CB B:SER966 4.6 21.5 1.0 N B:THR967 4.6 23.1 1.0 O B:TYR963 4.7 35.8 1.0 CE2 B:TRP877 4.7 24.7 1.0 CD1 B:LEU970 4.8 24.7 1.0 CA B:THR967 4.8 19.8 1.0 CB B:THR967 5.0 21.6 1.0

Sodium binding site 5 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1205 b:33.4 occ:1.00 CB C:LEU970 3.9 19.8 1.0 N C:LEU971 4.1 19.5 1.0 C C:LEU970 4.4 17.5 1.0 CA C:LEU971 4.5 11.6 1.0 O C:THR967 4.5 26.9 1.0 CB C:LEU971 4.6 18.4 1.0 CG2 C:THR967 4.7 24.9 1.0 CD1 C:LEU970 4.7 24.7 1.0 CA C:LEU970 4.8 7.9 1.0 O C:LEU970 4.8 27.6 1.0 CA C:THR967 4.9 19.8 1.0 CG C:LEU970 4.9 25.0 1.0 CD1 C:LEU971 4.9 26.2 1.0

Sodium binding site 6 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1206 b:43.2 occ:1.00 OG C:SER966 3.7 32.5 1.0 CH2 C:TRP877 3.9 30.0 1.0 OG1 C:THR967 4.0 32.5 1.0 CD1 C:TYR963 4.1 44.3 1.0 CZ2 C:TRP877 4.1 26.4 1.0 CE1 C:TYR963 4.2 44.4 1.0 CZ3 C:TRP877 4.5 29.7 1.0 CB C:SER966 4.6 21.5 1.0 N C:THR967 4.6 23.1 1.0 O C:TYR963 4.7 35.8 1.0 CE2 C:TRP877 4.7 24.7 1.0 CD1 C:LEU970 4.8 24.7 1.0 CA C:THR967 4.8 19.8 1.0 CB C:THR967 5.0 21.6 1.0

Sodium binding site 7 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ D:Na1205 b:33.4 occ:1.00 CB D:LEU970 3.9 19.8 1.0 N D:LEU971 4.1 19.5 1.0 C D:LEU970 4.4 17.5 1.0 CA D:LEU971 4.5 11.6 1.0 O D:THR967 4.5 26.9 1.0 CB D:LEU971 4.6 18.4 1.0 CG2 D:THR967 4.7 24.9 1.0 CD1 D:LEU970 4.7 24.7 1.0 CA D:LEU970 4.8 7.9 1.0 O D:LEU970 4.8 27.6 1.0 CA D:THR967 4.9 19.8 1.0 CG D:LEU970 4.9 25.0 1.0 CD1 D:LEU971 4.9 26.2 1.0

Sodium binding site 8 out of 8 in the Human Apo TRPM8 in A Closed State (Composite Map)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of Human Apo TRPM8 in A Closed State (Composite Map) within 5.0Å range: probe atom residue distance (Å) B Occ D:Na1206 b:43.2 occ:1.00 OG D:SER966 3.7 32.5 1.0 CH2 D:TRP877 3.9 30.0 1.0 OG1 D:THR967 4.0 32.5 1.0 CD1 D:TYR963 4.1 44.3 1.0 CZ2 D:TRP877 4.1 26.4 1.0 CE1 D:TYR963 4.2 44.4 1.0 CZ3 D:TRP877 4.5 29.7 1.0 CB D:SER966 4.6 21.5 1.0 N D:THR967 4.6 23.1 1.0 O D:TYR963 4.7 35.8 1.0 CE2 D:TRP877 4.7 24.7 1.0 CD1 D:LEU970 4.8 24.7 1.0 CA D:THR967 4.8 19.8 1.0 CB D:THR967 5.0 21.6 1.0

S.Palchevskyi, M.Czarnocki-Cieciura, G.Vistoli, S.Gervasoni, E.Nowak, A.R.Beccari, M.Nowotny, C.Talarico. Structure of Human TRPM8 Channel. Commun Biol V. 6 1065 2023.
ISSN: ESSN 2399-3642
PubMed: 37857704
DOI: 10.1038/S42003-023-05425-6