Magnesium in PDB 8f8r: Cryo-Em Structure of the Free Barbed End of F-Actin

The binding sites of Magnesium atom in the Cryo-Em Structure of the Free Barbed End of F-Actin (pdb code 8f8r). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Cryo-Em Structure of the Free Barbed End of F-Actin, PDB code: 8f8r:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in the Cryo-Em Structure of the Free 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 Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:105.6 occ:1.00 O1B A:ADP401 2.1 150.3 1.0 O1A A:ADP401 3.0 153.7 1.0 PB A:ADP401 3.1 152.4 1.0 O3B A:ADP401 3.2 149.0 1.0 O3A A:ADP401 4.1 150.9 1.0 PA A:ADP401 4.1 158.1 1.0 OD2 A:ASP11 4.2 174.6 1.0 CA A:GLY156 4.2 137.8 1.0 O2B A:ADP401 4.4 149.7 1.0 NZ A:LYS18 4.5 145.1 1.0 CA A:GLY13 4.6 157.0 1.0 OD1 A:ASP11 4.9 170.8 1.0 CG A:ASP11 5.0 173.4 1.0

Magnesium binding site 2 out of 7 in the Cryo-Em Structure of the Free 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 Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:87.1 occ:1.00 O1B B:ADP401 2.1 130.4 1.0 PB B:ADP401 3.2 135.9 1.0 O3B B:ADP401 3.4 125.3 1.0 O1A B:ADP401 3.4 123.7 1.0 OD2 B:ASP11 4.1 146.9 1.0 OE1 B:GLN137 4.2 138.0 1.0 CA B:GLY156 4.2 111.1 1.0 O3A B:ADP401 4.2 129.8 1.0 NZ B:LYS18 4.3 113.1 1.0 O2B B:ADP401 4.3 132.3 1.0 PA B:ADP401 4.4 132.2 1.0 CA B:GLY13 4.5 124.9 1.0 OD2 B:ASP154 4.7 122.0 1.0 CD B:GLN137 4.8 134.9 1.0 OD1 B:ASP11 4.8 143.1 1.0 CG B:ASP11 4.9 144.0 1.0 NE2 B:GLN137 4.9 136.2 1.0

Magnesium binding site 3 out of 7 in the Cryo-Em Structure of the Free 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 Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:72.5 occ:1.00 O1B C:ADP401 2.1 121.9 1.0 PB C:ADP401 3.4 134.1 1.0 O1A C:ADP401 3.4 121.8 1.0 O3B C:ADP401 3.6 116.7 1.0 OD2 C:ASP11 3.9 139.4 1.0 OE1 C:GLN137 4.0 128.4 1.0 O3A C:ADP401 4.2 120.7 1.0 PA C:ADP401 4.4 118.4 1.0 CA C:GLY13 4.4 112.2 1.0 NZ C:LYS18 4.4 107.0 1.0 OD1 C:ASP11 4.5 145.0 1.0 O2B C:ADP401 4.5 131.2 1.0 NE2 C:GLN137 4.5 120.7 1.0 CD C:GLN137 4.5 122.5 1.0 CG C:ASP11 4.6 138.5 1.0 OD2 C:ASP154 4.8 129.7 1.0 CA C:GLY156 4.9 116.7 1.0

Magnesium binding site 4 out of 7 in the Cryo-Em Structure of the Free 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 Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:74.3 occ:1.00 O1B D:ADP401 2.2 118.4 1.0 O1A D:ADP401 3.3 122.1 1.0 PB D:ADP401 3.4 127.8 1.0 O3B D:ADP401 3.6 121.3 1.0 OD2 D:ASP11 3.9 135.5 1.0 OE1 D:GLN137 4.2 133.0 1.0 O3A D:ADP401 4.3 127.5 1.0 NZ D:LYS18 4.4 111.7 1.0 PA D:ADP401 4.4 125.2 1.0 CA D:GLY156 4.4 118.6 1.0 O2B D:ADP401 4.5 126.3 1.0 OD2 D:ASP154 4.6 128.5 1.0 CA D:GLY13 4.7 113.0 1.0 OD1 D:ASP11 4.7 130.5 1.0 CG D:ASP11 4.7 131.8 1.0 CD D:GLN137 4.8 127.8 1.0 NE2 D:GLN137 4.9 127.6 1.0

Magnesium binding site 5 out of 7 in the Cryo-Em Structure of the Free 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 Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:76.4 occ:1.00 O1B E:ADP401 2.4 119.3 1.0 O1A E:ADP401 3.0 120.4 1.0 PB E:ADP401 3.5 126.9 1.0 O3B E:ADP401 3.6 118.2 1.0 OD2 E:ASP11 4.2 130.2 1.0 PA E:ADP401 4.2 127.0 1.0 OE1 E:GLN137 4.2 126.5 1.0 O3A E:ADP401 4.3 131.1 1.0 CA E:GLY156 4.3 118.1 1.0 NZ E:LYS18 4.4 107.3 1.0 OD2 E:ASP154 4.4 139.8 1.0 CA E:GLY13 4.6 119.2 1.0 O2B E:ADP401 4.8 127.3 1.0 OD1 E:ASP154 4.9 137.5 1.0 OD1 E:ASP11 4.9 132.0 1.0 CD E:GLN137 4.9 122.1 1.0 CG E:ASP11 5.0 131.1 1.0

Magnesium binding site 6 out of 7 in the Cryo-Em Structure of the Free 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 Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg402 b:94.3 occ:1.00 O1B F:ADP401 2.6 135.1 1.0 O1A F:ADP401 3.5 136.8 1.0 OD2 F:ASP11 3.7 144.0 1.0 PB F:ADP401 3.7 143.4 1.0 O3B F:ADP401 3.8 134.4 1.0 OE1 F:GLN137 3.8 144.2 1.0 OD1 F:ASP11 4.4 150.2 1.0 OD1 F:ASP154 4.4 138.8 1.0 CG F:ASP11 4.4 144.1 1.0 CD F:GLN137 4.5 138.7 1.0 NZ F:LYS18 4.6 114.3 1.0 CA F:GLY13 4.6 134.1 1.0 CA F:GLY156 4.6 129.5 1.0 O3A F:ADP401 4.6 136.8 1.0 PA F:ADP401 4.6 134.5 1.0 NE2 F:GLN137 4.7 139.9 1.0 O2B F:ADP401 4.9 138.8 1.0 CG2 F:VAL339 5.0 121.5 1.0

Magnesium binding site 7 out of 7 in the Cryo-Em Structure of the Free 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 7 of Cryo-Em Structure of the Free Barbed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg402 b:140.1 occ:1.00 O1B G:ADP401 2.0 168.8 1.0 PB G:ADP401 3.1 170.6 1.0 O1A G:ADP401 3.1 171.2 1.0 O3B G:ADP401 3.1 161.9 1.0 O3A G:ADP401 4.0 174.4 1.0 OD2 G:ASP11 4.0 189.7 1.0 PA G:ADP401 4.1 177.5 1.0 CA G:GLY156 4.1 169.2 1.0 NZ G:LYS18 4.3 162.4 1.0 O2B G:ADP401 4.3 171.8 1.0 CA G:GLY13 4.4 180.3 1.0 NE2 G:GLN137 4.6 197.6 1.0 CG G:ASP11 4.8 191.6 1.0 OD1 G:ASP11 4.9 192.0 1.0 O2A G:ADP401 4.9 168.6 1.0 OE1 G:GLN137 5.0 199.3 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