Calcium in PDB 9dyk: BEST2 + Gaba Closed State

The structure of BEST2 + Gaba Closed State also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Calcium atom in the BEST2 + Gaba Closed State (pdb code 9dyk). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the BEST2 + Gaba Closed State, PDB code: 9dyk:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in the BEST2 + Gaba Closed State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of BEST2 + Gaba Closed State within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca501 b:28.7 occ:1.00 O D:ASN296 2.4 28.9 1.0 OD2 D:ASP301 2.4 35.0 1.0 O C:ALA10 2.5 33.1 1.0 OD2 D:ASP304 2.6 32.7 1.0 O D:GLN293 2.7 33.0 1.0 OD1 D:ASP304 2.9 32.7 1.0 CG D:ASP304 3.1 32.7 1.0 CG D:ASP301 3.4 35.0 1.0 C D:ASN296 3.5 28.9 1.0 C C:ALA10 3.6 33.1 1.0 C D:GLN293 3.8 33.0 1.0 CB D:ASP301 4.0 35.0 1.0 CA C:ASN11 4.1 35.9 1.0 CA D:GLN293 4.2 33.0 1.0 O C:VAL9 4.3 33.1 1.0 N C:ASN11 4.3 35.9 1.0 OD1 D:ASP301 4.3 35.0 1.0 N D:GLY299 4.4 33.1 1.0 CA D:ASN296 4.4 28.9 1.0 N D:PRO297 4.4 27.9 1.0 CA D:PRO297 4.4 27.9 1.0 N D:ASN296 4.5 28.9 1.0 CB D:ASN296 4.5 28.9 1.0 CA D:GLY299 4.5 33.1 1.0 O D:GLU292 4.6 34.2 1.0 N C:ALA12 4.6 36.5 1.0 CB D:ASP304 4.6 32.7 1.0 CG D:GLN293 4.7 33.0 1.0 CA C:ALA10 4.7 33.1 1.0 C C:ASN11 4.7 35.9 1.0 N D:ASP301 4.7 35.0 1.0 C D:PRO297 4.8 27.9 1.0 OD1 C:ASN11 4.9 35.9 1.0 N D:LEU294 4.9 29.2 1.0

Calcium binding site 2 out of 5 in the BEST2 + Gaba Closed State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of BEST2 + Gaba Closed State within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca501 b:28.9 occ:1.00 O E:ASN296 2.4 28.4 1.0 OD2 E:ASP301 2.4 35.1 1.0 O D:ALA10 2.5 32.1 1.0 OD2 E:ASP304 2.6 32.5 1.0 O E:GLN293 2.7 33.0 1.0 OD1 E:ASP304 2.8 32.5 1.0 CG E:ASP304 3.1 32.5 1.0 CG E:ASP301 3.4 35.1 1.0 C E:ASN296 3.6 28.4 1.0 C D:ALA10 3.6 32.1 1.0 C E:GLN293 3.7 33.0 1.0 CB E:ASP301 4.0 35.1 1.0 CA D:ASN11 4.1 35.5 1.0 CA E:GLN293 4.2 33.0 1.0 N D:ASN11 4.3 35.5 1.0 O D:VAL9 4.3 31.9 1.0 OD1 E:ASP301 4.3 35.1 1.0 N E:GLY299 4.4 32.6 1.0 CA E:PRO297 4.4 27.8 1.0 N E:PRO297 4.4 27.8 1.0 CA E:ASN296 4.4 28.4 1.0 N E:ASN296 4.5 28.4 1.0 CA E:GLY299 4.5 32.6 1.0 CB E:ASN296 4.6 28.4 1.0 O E:GLU292 4.6 34.5 1.0 CG E:GLN293 4.6 33.0 1.0 N D:ALA12 4.6 37.3 1.0 CB E:ASP304 4.6 32.5 1.0 C D:ASN11 4.7 35.5 1.0 CA D:ALA10 4.7 32.1 1.0 N E:ASP301 4.8 35.1 1.0 C E:PRO297 4.8 27.8 1.0 OD1 D:ASN11 4.8 35.5 1.0 N E:LEU294 4.9 28.9 1.0

Calcium binding site 3 out of 5 in the BEST2 + Gaba Closed State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of BEST2 + Gaba Closed State within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca501 b:28.0 occ:1.00 O C:ASN296 2.4 28.3 1.0 OD2 C:ASP301 2.4 35.0 1.0 O C:GLN293 2.6 33.6 1.0 O B:ALA10 2.6 32.6 1.0 OD2 C:ASP304 2.6 32.9 1.0 OD1 C:ASP304 2.7 32.9 1.0 CG C:ASP304 3.1 32.9 1.0 CG C:ASP301 3.4 35.0 1.0 C C:ASN296 3.5 28.3 1.0 C C:GLN293 3.6 33.6 1.0 C B:ALA10 3.7 32.6 1.0 CB C:ASP301 3.9 35.0 1.0 CA C:GLN293 4.1 33.6 1.0 CA B:ASN11 4.2 35.4 1.0 CA C:PRO297 4.3 28.3 1.0 N C:PRO297 4.4 28.3 1.0 O B:VAL9 4.4 32.6 1.0 OD1 C:ASP301 4.4 35.0 1.0 N B:ASN11 4.4 35.4 1.0 CA C:ASN296 4.4 28.3 1.0 N C:GLY299 4.4 32.7 1.0 N C:ASN296 4.5 28.3 1.0 O C:GLU292 4.5 34.6 1.0 CG C:GLN293 4.5 33.6 1.0 CB C:ASP304 4.6 32.9 1.0 CB C:ASN296 4.6 28.3 1.0 CA C:GLY299 4.6 32.7 1.0 N B:ALA12 4.6 37.2 1.0 C B:ASN11 4.8 35.4 1.0 N C:ASP301 4.8 35.0 1.0 C C:PRO297 4.8 28.3 1.0 N C:LEU294 4.8 29.2 1.0 CA B:ALA10 4.8 32.6 1.0 OD1 B:ASN11 4.9 35.4 1.0 CB C:GLN293 4.9 33.6 1.0

Calcium binding site 4 out of 5 in the BEST2 + Gaba Closed State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of BEST2 + Gaba Closed State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:29.7 occ:1.00 O A:ASN296 2.4 28.4 1.0 OD2 A:ASP301 2.4 34.8 1.0 O E:ALA10 2.5 32.2 1.0 OD2 A:ASP304 2.6 32.6 1.0 O A:GLN293 2.7 33.4 1.0 OD1 A:ASP304 2.8 32.6 1.0 CG A:ASP304 3.1 32.6 1.0 CG A:ASP301 3.4 34.8 1.0 C A:ASN296 3.5 28.4 1.0 C E:ALA10 3.6 32.2 1.0 C A:GLN293 3.7 33.4 1.0 CB A:ASP301 4.0 34.8 1.0 CA E:ASN11 4.2 35.5 1.0 CA A:GLN293 4.2 33.4 1.0 O E:VAL9 4.3 31.5 1.0 OD1 A:ASP301 4.3 34.8 1.0 N E:ASN11 4.3 35.5 1.0 N A:GLY299 4.4 32.7 1.0 CA A:ASN296 4.4 28.4 1.0 CA A:PRO297 4.4 28.0 1.0 N A:PRO297 4.4 28.0 1.0 N A:ASN296 4.5 28.4 1.0 CA A:GLY299 4.5 32.7 1.0 CB A:ASN296 4.5 28.4 1.0 O A:GLU292 4.6 34.6 1.0 CB A:ASP304 4.6 32.6 1.0 CG A:GLN293 4.6 33.4 1.0 N E:ALA12 4.7 37.2 1.0 CA E:ALA10 4.7 32.2 1.0 C E:ASN11 4.7 35.5 1.0 N A:ASP301 4.8 34.8 1.0 C A:PRO297 4.8 28.0 1.0 N A:LEU294 4.9 28.9 1.0 OD1 E:ASN11 4.9 35.5 1.0

Calcium binding site 5 out of 5 in the BEST2 + Gaba Closed State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of BEST2 + Gaba Closed State within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:30.5 occ:1.00 O B:ASN296 2.4 28.7 1.0 OD2 B:ASP301 2.5 35.9 1.0 O A:ALA10 2.6 33.2 1.0 OD2 B:ASP304 2.6 33.1 1.0 O B:GLN293 2.7 33.5 1.0 OD1 B:ASP304 2.8 33.1 1.0 CG B:ASP304 3.1 33.1 1.0 CG B:ASP301 3.4 35.9 1.0 C B:ASN296 3.6 28.7 1.0 C A:ALA10 3.7 33.2 1.0 C B:GLN293 3.7 33.5 1.0 CB B:ASP301 4.0 35.9 1.0 CA B:GLN293 4.2 33.5 1.0 CA A:ASN11 4.2 36.3 1.0 O A:VAL9 4.3 32.6 1.0 N A:ASN11 4.3 36.3 1.0 OD1 B:ASP301 4.4 35.9 1.0 N B:GLY299 4.4 33.4 1.0 CA B:PRO297 4.4 28.0 1.0 N B:PRO297 4.4 28.0 1.0 CA B:ASN296 4.4 28.7 1.0 N B:ASN296 4.5 28.7 1.0 CA B:GLY299 4.5 33.4 1.0 O B:GLU292 4.6 34.5 1.0 CB B:ASN296 4.6 28.7 1.0 CB B:ASP304 4.6 33.1 1.0 CG B:GLN293 4.6 33.5 1.0 N A:ALA12 4.6 37.9 1.0 C A:ASN11 4.7 36.3 1.0 CA A:ALA10 4.7 33.2 1.0 N B:ASP301 4.7 35.9 1.0 C B:PRO297 4.8 28.0 1.0 N B:LEU294 4.9 29.4 1.0 OD1 A:ASN11 4.9 36.3 1.0 CB B:GLN293 5.0 33.5 1.0

A.P.Owji, J.Dong, A.Kittredge, J.Wang, Y.Zhang, T.Yang. Neurotransmitter-Bound Bestrophin Channel Structures Reveal Small Molecule Drug Targeting Sites For Disease Treatment. Nat Commun V. 15 10766 2024.
ISSN: ESSN 2041-1723
PubMed: 39737942
DOI: 10.1038/S41467-024-54938-Z