Magnesium in PDB 8f8q: Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin

The binding sites of Magnesium atom in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin (pdb code 8f8q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin, PDB code: 8f8q:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:36.1 occ:1.00 O3B A:ADP401 2.1 55.1 1.0 O2A A:ADP401 2.7 61.3 1.0 PB A:ADP401 3.3 60.5 1.0 O2B A:ADP401 3.6 65.8 1.0 PA A:ADP401 3.8 55.4 1.0 O3A A:ADP401 3.9 54.4 1.0 OE1 A:GLN137 4.0 64.8 1.0 NZ A:LYS18 4.1 63.3 1.0 OD1 A:ASP154 4.2 62.5 1.0 CA A:GLY156 4.4 49.5 1.0 O1B A:ADP401 4.5 65.9 1.0 OD2 A:ASP11 4.6 77.2 1.0 O1A A:ADP401 4.6 64.2 1.0 CD A:GLN137 4.8 58.1 1.0 CA A:GLY13 4.9 65.8 1.0

Magnesium binding site 2 out of 6 in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:32.9 occ:1.00 O3B B:ADP401 2.4 45.0 1.0 O2A B:ADP401 2.9 49.0 1.0 PB B:ADP401 3.6 48.3 1.0 OE1 B:GLN137 3.8 60.8 1.0 O2B B:ADP401 3.9 47.9 1.0 OD1 B:ASP154 4.0 51.7 1.0 PA B:ADP401 4.1 44.9 1.0 O3A B:ADP401 4.2 48.8 1.0 OD1 B:ASP11 4.2 63.8 1.0 CD B:GLN137 4.5 53.8 1.0 NZ B:LYS18 4.6 48.2 1.0 CA B:GLY156 4.6 40.9 1.0 NE2 B:GLN137 4.7 49.4 1.0 O1A B:ADP401 4.8 58.2 1.0 O1B B:ADP401 4.9 57.3 1.0 OD2 B:ASP11 4.9 62.1 1.0 CG B:ASP154 5.0 50.3 1.0 CA B:GLY13 5.0 52.1 1.0 CG B:ASP11 5.0 60.6 1.0

Magnesium binding site 3 out of 6 in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:35.3 occ:1.00 O3B C:ADP401 2.7 42.4 1.0 O2A C:ADP401 3.2 47.0 1.0 PB C:ADP401 3.9 45.3 1.0 OE1 C:GLN137 3.9 52.6 1.0 NZ C:LYS18 3.9 44.9 1.0 OD1 C:ASP154 4.0 55.7 1.0 O2B C:ADP401 4.1 46.4 1.0 OD2 C:ASP11 4.2 58.3 1.0 PA C:ADP401 4.4 33.5 1.0 CD C:GLN137 4.5 45.2 1.0 O3A C:ADP401 4.5 44.1 1.0 CA C:GLY156 4.7 40.4 1.0 NE2 C:GLN137 4.7 46.0 1.0 OD1 C:ASP11 4.8 60.2 1.0 CA C:GLY13 4.9 47.0 1.0 CG C:ASP11 4.9 57.2 1.0 CG2 C:VAL339 5.0 36.8 1.0 CG C:ASP154 5.0 51.2 1.0

Magnesium binding site 4 out of 6 in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:38.6 occ:1.00 O3B D:ADP401 2.2 49.5 1.0 PB D:ADP401 3.5 36.3 1.0 O2A D:ADP401 3.6 49.1 1.0 O2B D:ADP401 3.8 40.5 1.0 OE1 D:GLN137 3.9 54.7 1.0 NZ D:LYS18 4.0 46.6 1.0 OD2 D:ASP11 4.0 58.6 1.0 CA D:GLY13 4.2 48.3 1.0 O3A D:ADP401 4.4 42.3 1.0 OD1 D:ASP11 4.4 60.1 1.0 CD D:GLN137 4.4 47.8 1.0 NE2 D:GLN137 4.5 46.0 1.0 PA D:ADP401 4.5 41.5 1.0 CG D:ASP11 4.6 55.6 1.0 O1B D:ADP401 4.6 52.6 1.0 OD2 D:ASP154 4.6 54.8 1.0 N D:GLY13 4.9 44.4 1.0 CA D:GLY156 5.0 41.2 1.0

Magnesium binding site 5 out of 6 in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:44.9 occ:1.00 O3B E:ADP401 2.1 46.8 1.0 PB E:ADP401 3.4 32.4 1.0 OE1 E:GLN137 3.6 55.0 1.0 O2A E:ADP401 3.7 49.1 1.0 OD1 E:ASP11 3.8 51.2 1.0 O2B E:ADP401 3.8 45.1 1.0 CA E:GLY13 4.1 45.4 1.0 NZ E:LYS18 4.1 39.8 1.0 O3A E:ADP401 4.3 49.3 1.0 CD E:GLN137 4.4 47.6 1.0 OD2 E:ASP11 4.5 52.4 1.0 OD1 E:ASP154 4.5 57.6 1.0 O1B E:ADP401 4.5 53.3 1.0 CG E:ASP11 4.6 49.0 1.0 PA E:ADP401 4.6 43.0 1.0 NE2 E:GLN137 4.8 45.1 1.0 N E:GLY13 4.8 44.1 1.0 CA E:GLY156 5.0 41.1 1.0

Magnesium binding site 6 out of 6 in the Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of the Capz-Capped Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg402 b:29.4 occ:1.00 O3B F:ADP401 2.4 46.5 1.0 PB F:ADP401 3.8 33.6 1.0 O2A F:ADP401 4.0 39.9 1.0 OD2 F:ASP11 4.0 58.6 1.0 OE1 F:GLN137 4.1 53.9 1.0 NE2 F:GLN137 4.2 48.8 1.0 CD F:GLN137 4.3 49.5 1.0 O2B F:ADP401 4.3 48.1 1.0 NZ F:LYS18 4.3 42.0 1.0 OD1 F:ASP11 4.4 62.0 1.0 OD1 F:ASP154 4.6 54.2 1.0 CG F:ASP11 4.6 56.2 1.0 CA F:GLY13 4.7 45.9 1.0 CG2 F:VAL339 4.7 40.4 1.0 O3A F:ADP401 4.7 46.5 1.0 O1B F:ADP401 4.8 51.9 1.0 PA F:ADP401 4.9 37.3 1.0

P.J.Carman, K.R.Barrie, G.Rebowski, R.Dominguez. Structures of the Free and Capped Ends of the Actin Filament. Science G6812 2023.
ISSN: ESSN 1095-9203
PubMed: 37228182
DOI: 10.1126/SCIENCE.ADG6812