Calcium in PDB 7wrf: Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2

The structure of Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2 also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Calcium atom in the Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2 (pdb code 7wrf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2, PDB code: 7wrf:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1201 b:83.0 occ:1.00 OD1 A:ASN799 2.6 82.3 1.0 OE1 A:GLU782 2.7 86.5 1.0 OE2 A:GLU782 2.7 86.5 1.0 OD2 A:ASP802 2.9 75.0 1.0 OE1 A:GLN785 3.0 96.8 1.0 CD A:GLU782 3.0 86.5 1.0 NH1 A:ARG842 3.5 53.9 1.0 CG A:ASN799 3.8 82.3 1.0 CD A:GLN785 3.8 96.8 1.0 CG A:ASP802 3.9 75.0 1.0 OH A:TYR793 4.1 100.3 1.0 NE2 A:GLN785 4.2 96.8 1.0 CE1 A:TYR793 4.4 100.3 1.0 NH2 A:ARG842 4.4 53.9 1.0 CZ A:ARG842 4.5 53.9 1.0 CG A:GLU782 4.5 86.5 1.0 CB A:ASP802 4.6 75.0 1.0 CA A:ASN799 4.6 82.3 1.0 CB A:ASN799 4.6 82.3 1.0 CZ A:TYR793 4.7 100.3 1.0 ND2 A:ASN799 4.7 82.3 1.0 OD1 A:ASP802 4.8 75.0 1.0 CG A:GLN785 5.0 96.8 1.0

Calcium binding site 2 out of 4 in the Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1201 b:83.4 occ:1.00 OD1 B:ASN799 2.6 82.2 1.0 OE1 B:GLU782 2.7 86.1 1.0 OE2 B:GLU782 2.7 86.1 1.0 OD2 B:ASP802 2.9 75.0 1.0 OE1 B:GLN785 3.0 96.7 1.0 CD B:GLU782 3.0 86.1 1.0 NH1 B:ARG842 3.5 53.4 1.0 CG B:ASN799 3.8 82.2 1.0 CD B:GLN785 3.8 96.7 1.0 CG B:ASP802 3.9 75.0 1.0 OH B:TYR793 4.1 100.6 1.0 NE2 B:GLN785 4.2 96.7 1.0 CE1 B:TYR793 4.4 100.6 1.0 NH2 B:ARG842 4.4 53.4 1.0 CZ B:ARG842 4.5 53.4 1.0 CG B:GLU782 4.5 86.1 1.0 CB B:ASP802 4.6 75.0 1.0 CA B:ASN799 4.6 82.2 1.0 CB B:ASN799 4.6 82.2 1.0 CZ B:TYR793 4.7 100.6 1.0 ND2 B:ASN799 4.7 82.2 1.0 OD1 B:ASP802 4.8 75.0 1.0 CG B:GLN785 5.0 96.7 1.0

Calcium binding site 3 out of 4 in the Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1201 b:83.3 occ:1.00 OD1 C:ASN799 2.6 82.1 1.0 OE1 C:GLU782 2.7 85.7 1.0 OE2 C:GLU782 2.7 85.7 1.0 OD2 C:ASP802 2.9 74.9 1.0 OE1 C:GLN785 3.0 96.3 1.0 CD C:GLU782 3.0 85.7 1.0 NH1 C:ARG842 3.5 53.6 1.0 CG C:ASN799 3.8 82.1 1.0 CD C:GLN785 3.8 96.3 1.0 CG C:ASP802 3.9 74.9 1.0 OH C:TYR793 4.1 100.1 1.0 NE2 C:GLN785 4.2 96.3 1.0 CE1 C:TYR793 4.4 100.1 1.0 NH2 C:ARG842 4.4 53.6 1.0 CZ C:ARG842 4.5 53.6 1.0 CG C:GLU782 4.5 85.7 1.0 CB C:ASP802 4.6 74.9 1.0 CA C:ASN799 4.6 82.1 1.0 CB C:ASN799 4.6 82.1 1.0 CZ C:TYR793 4.7 100.1 1.0 ND2 C:ASN799 4.7 82.1 1.0 OD1 C:ASP802 4.8 74.9 1.0 CG C:GLN785 5.0 96.3 1.0

Calcium binding site 4 out of 4 in the Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Mouse TRPM8 in Lipid Nanodiscs in the Presence of Calcium, Icilin and Pi(4,5)P2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca1201 b:83.7 occ:1.00 OD1 D:ASN799 2.6 81.9 1.0 OE1 D:GLU782 2.7 86.7 1.0 OE2 D:GLU782 2.7 86.7 1.0 OD2 D:ASP802 2.9 75.0 1.0 OE1 D:GLN785 3.0 96.8 1.0 CD D:GLU782 3.0 86.7 1.0 NH1 D:ARG842 3.5 53.5 1.0 CG D:ASN799 3.8 81.9 1.0 CD D:GLN785 3.8 96.8 1.0 CG D:ASP802 3.9 75.0 1.0 OH D:TYR793 4.1 100.3 1.0 NE2 D:GLN785 4.2 96.8 1.0 CE1 D:TYR793 4.4 100.3 1.0 NH2 D:ARG842 4.4 53.5 1.0 CZ D:ARG842 4.5 53.5 1.0 CG D:GLU782 4.5 86.7 1.0 CB D:ASP802 4.6 75.0 1.0 CA D:ASN799 4.6 81.9 1.0 CB D:ASN799 4.6 81.9 1.0 CZ D:TYR793 4.7 100.3 1.0 ND2 D:ASN799 4.7 81.9 1.0 OD1 D:ASP802 4.8 75.0 1.0 CG D:GLN785 5.0 96.8 1.0

C.Zhao, Y.Xie, L.Xu, F.Ye, X.Xu, W.Yang, F.Yang, J.Guo. Structures of A Mammalian TRPM8 in Closed State. Nat Commun V. 13 3113 2022.
ISSN: ESSN 2041-1723
PubMed: 35662242
DOI: 10.1038/S41467-022-30919-Y