Zinc in PDB 8foa: Cryo-Em Structure of Human TRPV6 in Complex with the Natural Phytoestrogen Genistein

The structure of Cryo-Em Structure of Human TRPV6 in Complex with the Natural Phytoestrogen Genistein also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of Human TRPV6 in Complex with the Natural Phytoestrogen Genistein (pdb code 8foa). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of Human TRPV6 in Complex with the Natural Phytoestrogen Genistein, PDB code: 8foa:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Human TRPV6 in Complex with the Natural Phytoestrogen Genistein


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 Human TRPV6 in Complex with the Natural Phytoestrogen Genistein within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn814 b:51.0 occ:1.00 NE2 A:HIS587 2.2 55.3 1.0 NE2 A:HIS582 2.2 48.9 1.0 NE2 D:HIS587 2.3 54.2 1.0 CE1 A:HIS587 3.0 55.3 1.0 CD2 A:HIS582 3.2 48.9 1.0 CD2 D:HIS587 3.2 54.2 1.0 CE1 A:HIS582 3.2 48.9 1.0 CE1 D:HIS587 3.3 54.2 1.0 CD2 A:HIS587 3.3 55.3 1.0 CZ2 D:TRP583 3.8 55.0 1.0 CH2 D:TRP583 3.9 55.0 1.0 ND1 A:HIS587 4.2 55.3 1.0 ND1 A:HIS582 4.3 48.9 1.0 CG A:HIS582 4.4 48.9 1.0 CG A:HIS587 4.4 55.3 1.0 CG D:HIS587 4.4 54.2 1.0 ND1 D:HIS587 4.4 54.2 1.0 CE2 D:TRP583 4.7 55.0 1.0 CZ3 D:TRP583 4.9 55.0 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Human TRPV6 in Complex with the Natural Phytoestrogen Genistein


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 Human TRPV6 in Complex with the Natural Phytoestrogen Genistein within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn811 b:85.3 occ:1.00 NE2 C:HIS587 2.2 51.1 1.0 NE2 C:HIS582 2.4 43.1 1.0 NE2 B:HIS587 2.5 62.7 1.0 CE1 C:HIS587 2.7 51.1 1.0 CE1 C:HIS582 3.2 43.1 1.0 CD2 B:HIS587 3.4 62.7 1.0 CE1 B:HIS587 3.4 62.7 1.0 CD2 C:HIS587 3.5 51.1 1.0 CD2 C:HIS582 3.5 43.1 1.0 CZ2 B:TRP583 3.9 64.1 1.0 ND1 C:HIS587 4.0 51.1 1.0 CH2 B:TRP583 4.3 64.1 1.0 CG C:HIS587 4.4 51.1 1.0 ND1 C:HIS582 4.4 43.1 1.0 ND1 B:HIS587 4.5 62.7 1.0 CG B:HIS587 4.6 62.7 1.0 CG C:HIS582 4.6 43.1 1.0 CE2 B:TRP583 4.8 64.1 1.0

A.Neuberger, Y.A.Trofimov, M.V.Yelshanskaya, K.D.Nadezhdin, N.A.Krylov, R.G.Efremov, A.I.Sobolevsky. Structural Mechanism of Human Oncochannel TRPV6 Inhibition By the Natural Phytoestrogen Genistein. Nat Commun V. 14 2659 2023.
ISSN: ESSN 2041-1723
PubMed: 37160865
DOI: 10.1038/S41467-023-38352-5