Calcium in PDB 7mbv: Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna

The binding sites of Calcium atom in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna (pdb code 7mbv). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna, PDB code: 7mbv:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1502 b:24.8 occ:1.00 OE2 A:GLU768 2.5 21.6 1.0 OD1 A:ASN794 2.5 15.4 1.0 OD2 A:ASP797 2.9 15.2 1.0 CD A:GLU768 3.2 21.6 1.0 OE1 A:GLU768 3.3 21.6 1.0 CG A:ASN794 3.7 15.4 1.0 CG A:ASP797 4.1 15.2 1.0 ND2 A:ASN794 4.5 15.4 1.0 CG A:GLU768 4.6 21.6 1.0 CA A:ASN794 4.6 15.4 1.0 CB A:ASN794 4.7 15.4 1.0 CE1 A:TYR788 4.7 19.7 1.0 N A:ASN794 4.9 15.4 1.0 OD1 A:ASP797 4.9 15.2 1.0 OH A:TYR788 5.0 19.7 1.0 CB A:ASP797 5.0 15.2 1.0

Calcium binding site 2 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1503 b:34.5 occ:1.00 OE1 A:GLU212 2.4 47.6 1.0 OE2 A:GLU337 2.5 32.0 1.0 O A:ASP333 2.7 41.3 1.0 SG A:CYS324 2.8 38.9 1.0 OE1 A:GLU337 3.0 32.0 1.0 CD A:GLU337 3.1 32.0 1.0 OD1 A:ASP336 3.2 36.5 1.0 CD A:GLU212 3.6 47.6 1.0 CB A:CYS324 3.7 38.9 1.0 C A:ASP333 3.7 41.3 1.0 CG A:ASP336 4.1 36.5 1.0 OE2 A:GLU212 4.1 47.6 1.0 OD2 A:ASP336 4.2 36.5 1.0 CB A:ASP333 4.3 41.3 1.0 CA A:ASP333 4.4 41.3 1.0 CG A:GLU337 4.6 32.0 1.0 N A:PHE334 4.7 37.3 1.0 CG A:GLU212 4.8 47.6 1.0 CG A:ASP333 4.9 41.3 1.0 CA A:PHE334 4.9 37.3 1.0 CA A:CYS324 4.9 38.9 1.0

Calcium binding site 3 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1502 b:24.8 occ:1.00 OE2 B:GLU768 2.5 21.6 1.0 OD1 B:ASN794 2.5 15.4 1.0 OD2 B:ASP797 2.9 15.2 1.0 CD B:GLU768 3.2 21.6 1.0 OE1 B:GLU768 3.3 21.6 1.0 CG B:ASN794 3.7 15.4 1.0 CG B:ASP797 4.1 15.2 1.0 ND2 B:ASN794 4.5 15.4 1.0 CG B:GLU768 4.6 21.6 1.0 CA B:ASN794 4.6 15.4 1.0 CB B:ASN794 4.7 15.4 1.0 CE1 B:TYR788 4.7 19.7 1.0 N B:ASN794 4.9 15.4 1.0 OD1 B:ASP797 4.9 15.2 1.0 OH B:TYR788 5.0 19.7 1.0 CB B:ASP797 5.0 15.2 1.0

Calcium binding site 4 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1503 b:34.5 occ:1.00 OE1 B:GLU212 2.4 47.6 1.0 OE2 B:GLU337 2.5 32.0 1.0 O B:ASP333 2.7 41.3 1.0 SG B:CYS324 2.8 38.9 1.0 OE1 B:GLU337 3.0 32.0 1.0 CD B:GLU337 3.1 32.0 1.0 OD1 B:ASP336 3.2 36.5 1.0 CD B:GLU212 3.6 47.6 1.0 CB B:CYS324 3.7 38.9 1.0 C B:ASP333 3.7 41.3 1.0 CG B:ASP336 4.1 36.5 1.0 OE2 B:GLU212 4.1 47.6 1.0 OD2 B:ASP336 4.2 36.5 1.0 CB B:ASP333 4.3 41.3 1.0 CA B:ASP333 4.4 41.3 1.0 CG B:GLU337 4.6 32.0 1.0 N B:PHE334 4.7 37.3 1.0 CG B:GLU212 4.8 47.6 1.0 CG B:ASP333 4.9 41.3 1.0 CA B:PHE334 4.9 37.3 1.0 CA B:CYS324 4.9 38.9 1.0

Calcium binding site 5 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1502 b:24.8 occ:1.00 OE2 C:GLU768 2.5 21.6 1.0 OD1 C:ASN794 2.5 15.4 1.0 OD2 C:ASP797 2.9 15.2 1.0 CD C:GLU768 3.2 21.6 1.0 OE1 C:GLU768 3.3 21.6 1.0 CG C:ASN794 3.7 15.4 1.0 CG C:ASP797 4.1 15.2 1.0 ND2 C:ASN794 4.5 15.4 1.0 CG C:GLU768 4.6 21.6 1.0 CA C:ASN794 4.6 15.4 1.0 CB C:ASN794 4.7 15.4 1.0 CE1 C:TYR788 4.7 19.7 1.0 N C:ASN794 4.9 15.4 1.0 OD1 C:ASP797 4.9 15.2 1.0 OH C:TYR788 5.0 19.7 1.0 CB C:ASP797 5.0 15.2 1.0

Calcium binding site 6 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1503 b:34.5 occ:1.00 OE1 C:GLU212 2.4 47.6 1.0 OE2 C:GLU337 2.5 32.0 1.0 O C:ASP333 2.7 41.3 1.0 SG C:CYS324 2.8 38.9 1.0 OE1 C:GLU337 3.0 32.0 1.0 CD C:GLU337 3.1 32.0 1.0 OD1 C:ASP336 3.2 36.5 1.0 CD C:GLU212 3.6 47.6 1.0 CB C:CYS324 3.7 38.9 1.0 C C:ASP333 3.7 41.3 1.0 CG C:ASP336 4.1 36.5 1.0 OE2 C:GLU212 4.1 47.6 1.0 OD2 C:ASP336 4.2 36.5 1.0 CB C:ASP333 4.3 41.3 1.0 CA C:ASP333 4.4 41.3 1.0 CG C:GLU337 4.6 32.0 1.0 N C:PHE334 4.7 37.3 1.0 CG C:GLU212 4.8 47.6 1.0 CG C:ASP333 4.9 41.3 1.0 CA C:PHE334 4.9 37.3 1.0 CA C:CYS324 4.9 38.9 1.0

Calcium binding site 7 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca3003 b:24.8 occ:1.00 OE2 D:GLU768 2.5 21.6 1.0 OD1 D:ASN794 2.5 15.4 1.0 OD2 D:ASP797 2.9 15.2 1.0 CD D:GLU768 3.2 21.6 1.0 OE1 D:GLU768 3.3 21.6 1.0 CG D:ASN794 3.7 15.4 1.0 CG D:ASP797 4.1 15.2 1.0 ND2 D:ASN794 4.5 15.4 1.0 CG D:GLU768 4.6 21.6 1.0 CA D:ASN794 4.6 15.4 1.0 CB D:ASN794 4.7 15.4 1.0 CE1 D:TYR788 4.7 19.7 1.0 N D:ASN794 4.9 15.4 1.0 OD1 D:ASP797 4.9 15.2 1.0 OH D:TYR788 5.0 19.7 1.0 CB D:ASP797 5.0 15.2 1.0

Calcium binding site 8 out of 8 in the Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Cryo-Em Structure of Zebrafish TRPM5 in the Presence of 5 Mm Calcium and 0.5 Mm Ndna within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca3004 b:34.5 occ:1.00 OE1 D:GLU212 2.4 47.6 1.0 OE2 D:GLU337 2.5 32.0 1.0 O D:ASP333 2.7 41.3 1.0 SG D:CYS324 2.8 38.9 1.0 OE1 D:GLU337 3.0 32.0 1.0 CD D:GLU337 3.1 32.0 1.0 OD1 D:ASP336 3.2 36.5 1.0 CD D:GLU212 3.6 47.6 1.0 CB D:CYS324 3.7 38.9 1.0 C D:ASP333 3.7 41.3 1.0 CG D:ASP336 4.1 36.5 1.0 OE2 D:GLU212 4.1 47.6 1.0 OD2 D:ASP336 4.2 36.5 1.0 CB D:ASP333 4.3 41.3 1.0 CA D:ASP333 4.4 41.3 1.0 CG D:GLU337 4.6 32.0 1.0 N D:PHE334 4.7 37.3 1.0 CG D:GLU212 4.8 47.6 1.0 CG D:ASP333 4.9 41.3 1.0 CA D:PHE334 4.9 37.3 1.0 CA D:CYS324 4.9 38.9 1.0

Z.Ruan, E.Haley, I.J.Orozco, M.Sabat, R.Myers, R.Roth, J.Du, W.Lu. Structures of the TRPM5 Channel Elucidate Mechanisms of Activation and Inhibition. Nat.Struct.Mol.Biol. 2021.
ISSN: ESSN 1545-9985
PubMed: 34168372
DOI: 10.1038/S41594-021-00607-4