Zinc in PDB 8v4s: Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium

The binding sites of Zinc atom in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium (pdb code 8v4s). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium, PDB code: 8v4s:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:109.2 occ:1.00 SG A:CYS499 2.3 84.8 1.0 SG A:CYS506 2.3 86.5 1.0 SG A:CYS572 2.3 76.3 1.0 SG A:CYS479 2.3 96.5 1.0 CB A:CYS572 3.2 70.8 1.0 CB A:CYS479 3.2 93.1 1.0 CB A:CYS506 3.4 83.0 1.0 CB A:CYS499 3.5 78.3 1.0 ZN A:ZN603 3.9 108.5 1.0 CA A:CYS506 4.0 82.8 1.0 N A:ILE507 4.2 79.8 1.0 N A:CYS499 4.3 79.9 1.0 CG2 A:ILE507 4.3 78.2 1.0 SG A:CYS482 4.5 85.8 1.0 CA A:CYS499 4.5 77.0 1.0 C A:CYS506 4.6 84.8 1.0 CA A:CYS572 4.6 69.7 1.0 CA A:CYS479 4.7 92.9 1.0 SG A:CYS498 4.7 81.5 1.0 CB A:ASN481 4.8 88.8 1.0

Zinc binding site 2 out of 6 in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn603 b:108.5 occ:1.00 SG A:CYS479 2.3 96.5 1.0 SG A:CYS482 2.3 85.8 1.0 SG A:CYS477 2.3 93.7 1.0 SG A:CYS498 2.3 81.5 1.0 CB A:CYS482 3.1 85.2 1.0 CB A:CYS477 3.4 88.0 1.0 N A:CYS479 3.5 92.5 1.0 CB A:CYS479 3.5 93.1 1.0 CB A:CYS498 3.7 78.5 1.0 CA A:CYS477 3.7 85.7 1.0 N A:CYS482 3.8 87.6 1.0 ZN A:ZN602 3.9 109.2 1.0 N A:GLN478 3.9 90.0 1.0 N A:GLY480 3.9 93.3 1.0 CA A:CYS479 3.9 92.9 1.0 CA A:CYS482 4.0 86.9 1.0 C A:CYS477 4.1 88.2 1.0 CA A:CYS498 4.2 76.6 1.0 C A:CYS479 4.3 93.4 1.0 SG A:CYS572 4.4 76.3 1.0 N A:ASN481 4.5 88.7 1.0 N A:CYS499 4.5 79.9 1.0 C A:GLN478 4.6 88.9 1.0 CB A:CYS572 4.7 70.8 1.0 SG A:CYS499 4.8 84.8 1.0 C A:ASN481 4.8 88.1 1.0 CA A:GLN478 4.8 88.1 1.0 CA A:GLY480 5.0 93.8 1.0 C A:CYS498 5.0 80.1 1.0

Zinc binding site 3 out of 6 in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:109.2 occ:1.00 SG B:CYS499 2.3 84.8 1.0 SG B:CYS506 2.3 86.5 1.0 SG B:CYS572 2.3 76.3 1.0 SG B:CYS479 2.3 96.5 1.0 CB B:CYS572 3.2 70.8 1.0 CB B:CYS479 3.2 93.1 1.0 CB B:CYS506 3.4 83.0 1.0 CB B:CYS499 3.5 78.3 1.0 ZN B:ZN603 3.9 108.5 1.0 CA B:CYS506 4.0 82.8 1.0 N B:ILE507 4.2 79.8 1.0 N B:CYS499 4.3 79.9 1.0 CG2 B:ILE507 4.3 78.2 1.0 SG B:CYS482 4.5 85.8 1.0 CA B:CYS499 4.5 77.0 1.0 C B:CYS506 4.6 84.8 1.0 CA B:CYS572 4.6 69.7 1.0 CA B:CYS479 4.7 92.9 1.0 SG B:CYS498 4.7 81.5 1.0 CB B:ASN481 4.8 88.8 1.0

Zinc binding site 4 out of 6 in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn603 b:108.5 occ:1.00 SG B:CYS479 2.3 96.5 1.0 SG B:CYS482 2.3 85.8 1.0 SG B:CYS477 2.3 93.7 1.0 SG B:CYS498 2.3 81.5 1.0 CB B:CYS482 3.1 85.2 1.0 CB B:CYS477 3.4 88.0 1.0 N B:CYS479 3.5 92.5 1.0 CB B:CYS479 3.5 93.1 1.0 CB B:CYS498 3.7 78.5 1.0 CA B:CYS477 3.7 85.7 1.0 N B:CYS482 3.8 87.6 1.0 ZN B:ZN602 3.9 109.2 1.0 N B:GLN478 3.9 90.0 1.0 N B:GLY480 3.9 93.3 1.0 CA B:CYS479 3.9 92.9 1.0 CA B:CYS482 4.0 86.9 1.0 C B:CYS477 4.1 88.2 1.0 CA B:CYS498 4.2 76.6 1.0 C B:CYS479 4.3 93.4 1.0 SG B:CYS572 4.4 76.3 1.0 N B:ASN481 4.5 88.7 1.0 N B:CYS499 4.5 79.9 1.0 C B:GLN478 4.6 88.9 1.0 CB B:CYS572 4.7 70.8 1.0 SG B:CYS499 4.8 84.8 1.0 C B:ASN481 4.8 88.1 1.0 CA B:GLN478 4.8 88.1 1.0 CA B:GLY480 5.0 93.8 1.0 C B:CYS498 5.0 80.1 1.0

Zinc binding site 5 out of 6 in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn602 b:109.2 occ:1.00 SG C:CYS499 2.3 84.8 1.0 SG C:CYS506 2.3 86.5 1.0 SG C:CYS572 2.3 76.3 1.0 SG C:CYS479 2.3 96.5 1.0 CB C:CYS572 3.2 70.8 1.0 CB C:CYS479 3.2 93.1 1.0 CB C:CYS506 3.4 83.0 1.0 CB C:CYS499 3.5 78.3 1.0 ZN C:ZN603 3.9 108.5 1.0 CA C:CYS506 4.0 82.8 1.0 N C:ILE507 4.2 79.8 1.0 N C:CYS499 4.3 79.9 1.0 CG2 C:ILE507 4.3 78.2 1.0 SG C:CYS482 4.5 85.8 1.0 CA C:CYS499 4.5 77.0 1.0 C C:CYS506 4.6 84.8 1.0 CA C:CYS572 4.6 69.7 1.0 CA C:CYS479 4.7 92.9 1.0 SG C:CYS498 4.7 81.5 1.0 CB C:ASN481 4.8 88.8 1.0

Zinc binding site 6 out of 6 in the Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Cryo-Em Structure of the Rat P2X7 Receptor in the Apo Closed State Purified in the Absence of Sodium within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn603 b:108.5 occ:1.00 SG C:CYS479 2.3 96.5 1.0 SG C:CYS482 2.3 85.8 1.0 SG C:CYS477 2.3 93.7 1.0 SG C:CYS498 2.3 81.5 1.0 CB C:CYS482 3.1 85.2 1.0 CB C:CYS477 3.4 88.0 1.0 N C:CYS479 3.5 92.5 1.0 CB C:CYS479 3.5 93.1 1.0 CB C:CYS498 3.7 78.5 1.0 CA C:CYS477 3.7 85.7 1.0 N C:CYS482 3.8 87.6 1.0 ZN C:ZN602 3.9 109.2 1.0 N C:GLN478 3.9 90.0 1.0 N C:GLY480 3.9 93.3 1.0 CA C:CYS479 3.9 92.9 1.0 CA C:CYS482 4.0 86.9 1.0 C C:CYS477 4.1 88.2 1.0 CA C:CYS498 4.2 76.6 1.0 C C:CYS479 4.3 93.4 1.0 SG C:CYS572 4.4 76.3 1.0 N C:ASN481 4.5 88.7 1.0 N C:CYS499 4.5 79.9 1.0 C C:GLN478 4.6 88.9 1.0 CB C:CYS572 4.7 70.8 1.0 SG C:CYS499 4.8 84.8 1.0 C C:ASN481 4.8 88.1 1.0 CA C:GLN478 4.8 88.1 1.0 CA C:GLY480 5.0 93.8 1.0 C C:CYS498 5.0 80.1 1.0

A.C.Oken, N.E.Lisi, I.Krishnamurthy, A.E.Mccarthy, M.H.Godsey, A.Glasfeld, S.E.Mansoor. High-Affinity Agonism at the P2X7 Receptor Is Mediated By Three Residues Outside the Orthosteric Pocket Nat Commun 2024.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-024-50771-6