Calcium in PDB 9dyl: BEST1 + Paba Open State

The binding sites of Calcium atom in the BEST1 + Paba Open State (pdb code 9dyl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the BEST1 + Paba Open State, PDB code: 9dyl:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in the BEST1 + Paba Open State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of BEST1 + Paba Open State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:37.4 occ:1.00 O A:ASN296 2.3 32.1 1.0 OD2 A:ASP304 2.4 30.5 1.0 OD2 A:ASP301 2.4 46.1 1.0 O A:GLN293 2.6 38.9 1.0 O B:ALA10 2.6 39.1 1.0 OD1 A:ASP304 2.7 31.9 1.0 CG A:ASP304 2.9 34.7 1.0 C A:ASN296 3.4 28.1 1.0 CG A:ASP301 3.5 49.7 1.0 C A:GLN293 3.7 34.0 1.0 C B:ALA10 3.8 42.5 1.0 N A:GLY299 4.1 35.4 1.0 CA A:GLY299 4.1 37.3 1.0 CB A:ASP301 4.1 43.5 1.0 CA A:GLN293 4.2 38.2 1.0 N A:PRO297 4.2 28.9 1.0 CA A:ASN296 4.3 28.4 1.0 CA A:PRO297 4.3 29.4 1.0 CA B:ASN11 4.3 47.5 1.0 N A:ASN296 4.3 29.0 1.0 CB A:ASP304 4.4 32.1 1.0 CB A:ASN296 4.4 30.7 1.0 OD1 A:ASP301 4.4 69.5 1.0 N B:ASN11 4.5 49.5 1.0 O B:VAL9 4.6 37.0 1.0 C A:PRO297 4.6 27.8 1.0 O A:GLU292 4.6 57.3 1.0 NE2 A:GLN293 4.6 80.3 1.0 N A:ASP301 4.7 39.1 1.0 N A:LEU294 4.7 34.1 1.0 C A:GLY299 4.7 35.1 1.0 CA B:ALA10 4.8 37.9 1.0 CG A:GLN293 4.8 52.4 1.0 C B:ASN11 4.8 53.4 1.0 N A:PHE298 4.9 30.9 1.0 OD1 B:ASN11 4.9 63.2 1.0 CD A:GLN293 4.9 63.4 1.0 N A:GLU300 5.0 44.3 1.0 O A:PRO297 5.0 29.2 1.0

Calcium binding site 2 out of 5 in the BEST1 + Paba Open State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of BEST1 + Paba Open State within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca601 b:34.5 occ:1.00 O E:ASN296 2.3 31.5 1.0 OD2 E:ASP304 2.4 24.9 1.0 OD2 E:ASP301 2.4 53.1 1.0 O E:GLN293 2.6 34.9 1.0 O A:ALA10 2.6 41.2 1.0 OD1 E:ASP304 2.7 30.9 1.0 CG E:ASP304 2.9 30.0 1.0 C E:ASN296 3.4 28.9 1.0 CG E:ASP301 3.5 52.7 1.0 C E:GLN293 3.7 29.8 1.0 C A:ALA10 3.8 42.5 1.0 N E:GLY299 4.1 34.2 1.0 CA E:GLY299 4.1 38.3 1.0 CB E:ASP301 4.1 44.5 1.0 CA E:GLN293 4.2 37.2 1.0 N E:PRO297 4.2 28.8 1.0 CA E:ASN296 4.3 29.4 1.0 CA E:PRO297 4.3 29.9 1.0 CB E:ASP304 4.4 28.9 1.0 N E:ASN296 4.4 31.7 1.0 CA A:ASN11 4.4 46.4 1.0 CB E:ASN296 4.4 32.0 1.0 OD1 E:ASP301 4.4 70.2 1.0 N A:ASN11 4.5 48.0 1.0 C E:PRO297 4.6 28.6 1.0 O A:VAL9 4.6 34.9 1.0 NE2 E:GLN293 4.6 73.1 1.0 O E:GLU292 4.6 58.3 1.0 N E:ASP301 4.7 42.2 1.0 N E:LEU294 4.7 31.3 1.0 C E:GLY299 4.7 38.5 1.0 CA A:ALA10 4.8 35.4 1.0 CG E:GLN293 4.8 48.1 1.0 N E:PHE298 4.9 29.9 1.0 C A:ASN11 4.9 52.7 1.0 CD E:GLN293 4.9 58.8 1.0 OD1 A:ASN11 5.0 64.0 1.0 N E:GLU300 5.0 48.0 1.0 O E:PRO297 5.0 30.1 1.0 CG E:ASN296 5.0 32.5 1.0

Calcium binding site 3 out of 5 in the BEST1 + Paba Open State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of BEST1 + Paba Open State within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca601 b:35.1 occ:1.00 O B:ASN296 2.3 29.4 1.0 OD2 B:ASP301 2.4 51.4 1.0 OD2 B:ASP304 2.4 27.7 1.0 O B:GLN293 2.6 37.1 1.0 O C:ALA10 2.6 40.5 1.0 OD1 B:ASP304 2.7 27.5 1.0 CG B:ASP304 2.9 31.6 1.0 C B:ASN296 3.4 27.3 1.0 CG B:ASP301 3.5 49.9 1.0 C B:GLN293 3.6 32.6 1.0 C C:ALA10 3.7 41.9 1.0 N B:GLY299 4.1 33.9 1.0 CA B:GLY299 4.1 36.9 1.0 CB B:ASP301 4.1 46.6 1.0 CA B:GLN293 4.2 38.4 1.0 N B:PRO297 4.3 28.4 1.0 CA B:ASN296 4.3 28.0 1.0 CA C:ASN11 4.3 46.8 1.0 CA B:PRO297 4.3 29.5 1.0 N B:ASN296 4.3 31.6 1.0 CB B:ASP304 4.4 30.3 1.0 CB B:ASN296 4.4 29.9 1.0 OD1 B:ASP301 4.4 72.0 1.0 N C:ASN11 4.4 48.0 1.0 O C:VAL9 4.5 34.6 1.0 O B:GLU292 4.6 55.1 1.0 NE2 B:GLN293 4.6 81.2 1.0 C B:PRO297 4.6 28.7 1.0 N B:LEU294 4.7 33.2 1.0 N B:ASP301 4.7 42.8 1.0 C B:GLY299 4.8 36.7 1.0 CA C:ALA10 4.8 37.5 1.0 CG B:GLN293 4.8 53.1 1.0 C C:ASN11 4.8 52.7 1.0 OD1 C:ASN11 4.9 66.4 1.0 N B:PHE298 4.9 31.1 1.0 CD B:GLN293 4.9 63.6 1.0 N B:GLU300 5.0 45.3 1.0

Calcium binding site 4 out of 5 in the BEST1 + Paba Open State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of BEST1 + Paba Open State within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca601 b:39.1 occ:1.00 O D:ASN296 2.3 28.6 1.0 OD2 D:ASP301 2.4 44.7 1.0 OD2 D:ASP304 2.4 25.8 1.0 O E:ALA10 2.5 46.1 1.0 O D:GLN293 2.6 41.8 1.0 OD1 D:ASP304 2.7 27.1 1.0 CG D:ASP304 2.9 30.6 1.0 C D:ASN296 3.4 26.6 1.0 CG D:ASP301 3.5 46.1 1.0 C D:GLN293 3.7 35.3 1.0 C E:ALA10 3.7 41.4 1.0 N D:GLY299 4.1 37.1 1.0 CA D:GLY299 4.1 40.1 1.0 CB D:ASP301 4.2 41.3 1.0 CA D:GLN293 4.2 40.7 1.0 CA D:ASN296 4.2 28.0 1.0 N D:PRO297 4.3 27.1 1.0 CA E:ASN11 4.3 47.2 1.0 CA D:PRO297 4.3 29.3 1.0 N D:ASN296 4.3 30.4 1.0 CB D:ASN296 4.4 30.0 1.0 CB D:ASP304 4.4 30.6 1.0 N E:ASN11 4.4 47.9 1.0 OD1 D:ASP301 4.4 68.8 1.0 O E:VAL9 4.5 35.0 1.0 O D:GLU292 4.6 52.2 1.0 C D:PRO297 4.6 29.4 1.0 NE2 D:GLN293 4.6 90.7 1.0 N D:LEU294 4.7 34.0 1.0 N D:ASP301 4.7 40.0 1.0 CA E:ALA10 4.7 37.4 1.0 C D:GLY299 4.8 39.7 1.0 C E:ASN11 4.8 51.6 1.0 CG D:GLN293 4.8 59.2 1.0 N D:PHE298 4.9 32.1 1.0 OD1 E:ASN11 4.9 70.3 1.0 CD D:GLN293 5.0 71.8 1.0 N D:GLU300 5.0 48.8 1.0 CG D:ASN296 5.0 33.1 1.0

Calcium binding site 5 out of 5 in the BEST1 + Paba Open State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of BEST1 + Paba Open State within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca601 b:36.7 occ:1.00 O C:ASN296 2.3 28.0 1.0 OD2 C:ASP304 2.4 27.3 1.0 OD2 C:ASP301 2.4 54.2 1.0 O D:ALA10 2.6 40.2 1.0 O C:GLN293 2.6 38.8 1.0 OD1 C:ASP304 2.7 31.1 1.0 CG C:ASP304 2.9 29.6 1.0 C C:ASN296 3.4 27.1 1.0 CG C:ASP301 3.5 54.5 1.0 C C:GLN293 3.7 34.0 1.0 C D:ALA10 3.7 40.2 1.0 N C:GLY299 4.1 34.7 1.0 CA C:GLY299 4.1 36.6 1.0 CB C:ASP301 4.1 46.0 1.0 CA C:GLN293 4.2 40.1 1.0 N C:PRO297 4.3 27.8 1.0 CA C:ASN296 4.3 28.4 1.0 CA C:PRO297 4.3 29.4 1.0 CA D:ASN11 4.3 47.1 1.0 CB C:ASP304 4.4 28.4 1.0 N C:ASN296 4.4 32.0 1.0 OD1 C:ASP301 4.4 70.6 1.0 CB C:ASN296 4.4 29.4 1.0 N D:ASN11 4.5 48.4 1.0 O D:VAL9 4.5 38.1 1.0 O C:GLU292 4.6 55.4 1.0 C C:PRO297 4.6 29.0 1.0 NE2 C:GLN293 4.6 78.5 1.0 N C:ASP301 4.7 41.7 1.0 C C:GLY299 4.7 37.3 1.0 N C:LEU294 4.7 34.0 1.0 CA D:ALA10 4.8 36.7 1.0 CG C:GLN293 4.8 51.3 1.0 C D:ASN11 4.8 54.6 1.0 N C:PHE298 4.9 31.7 1.0 OD1 D:ASN11 4.9 65.0 1.0 N C:GLU300 4.9 46.9 1.0 CD C:GLN293 4.9 61.2 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