Magnesium in PDB 8f8s: Cryo-Em Structure of the Free Pointed End of F-Actin

The binding sites of Magnesium atom in the Cryo-Em Structure of the Free Pointed End of F-Actin (pdb code 8f8s). 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 Pointed End of F-Actin, PDB code: 8f8s:
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 Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:33.0 occ:1.00 O2B A:ADP401 2.0 55.3 1.0 PB A:ADP401 3.5 46.5 1.0 OE1 A:GLN137 3.8 70.1 1.0 OD1 A:ASP154 4.0 71.8 1.0 O1B A:ADP401 4.1 54.5 1.0 CD A:GLN137 4.1 68.5 1.0 OD1 A:ASP11 4.1 70.1 1.0 NZ A:LYS18 4.2 64.2 1.0 NE2 A:GLN137 4.2 67.0 1.0 O3B A:ADP401 4.3 55.7 1.0 CA A:GLY13 4.3 62.6 1.0 O3A A:ADP401 4.5 49.4 1.0 OD2 A:ASP154 4.7 73.3 1.0 CG A:ASP154 4.7 70.4 1.0 CG A:ASP11 4.8 71.4 1.0 OD2 A:ASP11 4.8 73.0 1.0 CG2 A:VAL339 4.9 61.1 1.0 CG A:GLN137 5.0 64.0 1.0

Magnesium binding site 2 out of 7 in the Cryo-Em Structure of the Free Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:32.4 occ:1.00 O2B B:ADP401 2.1 52.1 1.0 PB B:ADP401 3.3 42.9 1.0 OE1 B:GLN137 3.5 55.8 1.0 O1B B:ADP401 3.7 56.1 1.0 NZ B:LYS18 3.9 44.5 1.0 O3B B:ADP401 4.0 47.3 1.0 OD2 B:ASP11 4.2 43.1 1.0 CD B:GLN137 4.2 48.0 1.0 OD1 B:ASP154 4.2 55.8 1.0 O2A B:ADP401 4.4 45.7 1.0 CA B:GLY13 4.5 49.4 1.0 NE2 B:GLN137 4.6 47.4 1.0 O3A B:ADP401 4.6 43.2 1.0 OD1 B:ASP11 4.6 45.5 1.0 OD2 B:ASP154 4.7 62.2 1.0 CG2 B:VAL339 4.8 42.1 1.0 CG B:ASP11 4.8 41.4 1.0 CG B:ASP154 4.9 56.7 1.0

Magnesium binding site 3 out of 7 in the Cryo-Em Structure of the Free Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:38.2 occ:1.00 O3B C:ADP401 2.5 43.4 1.0 O2A C:ADP401 3.8 48.9 1.0 NE2 C:GLN137 3.8 48.4 1.0 PB C:ADP401 3.9 30.8 1.0 NZ C:LYS18 3.9 48.9 1.0 OD2 C:ASP154 4.1 57.5 1.0 OD2 C:ASP11 4.1 57.8 1.0 O2B C:ADP401 4.4 51.2 1.0 CD C:GLN137 4.5 47.1 1.0 OD1 C:ASP11 4.6 57.8 1.0 O3A C:ADP401 4.6 37.2 1.0 CA C:GLY13 4.7 52.7 1.0 OD1 C:ASP154 4.7 58.9 1.0 CG C:ASP11 4.8 58.4 1.0 CG2 C:VAL339 4.8 37.2 1.0 PA C:ADP401 4.8 41.5 1.0 CG C:ASP154 4.9 59.3 1.0 CA C:GLY156 4.9 41.2 1.0 OE1 C:GLN137 4.9 53.6 1.0 O1B C:ADP401 4.9 52.8 1.0

Magnesium binding site 4 out of 7 in the Cryo-Em Structure of the Free Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:24.6 occ:1.00 O3B D:ADP401 2.6 49.2 1.0 PB D:ADP401 3.9 37.4 1.0 O2A D:ADP401 3.9 45.3 1.0 OE1 D:GLN137 3.9 52.4 1.0 NE2 D:GLN137 4.0 47.4 1.0 CD D:GLN137 4.1 50.8 1.0 O2B D:ADP401 4.1 43.6 1.0 OD1 D:ASP154 4.2 58.0 1.0 OD2 D:ASP11 4.2 58.0 1.0 NZ D:LYS18 4.4 48.1 1.0 OD1 D:ASP11 4.6 65.1 1.0 CA D:GLY13 4.7 43.6 1.0 O3A D:ADP401 4.8 46.4 1.0 CG D:ASP11 4.8 58.0 1.0 O1B D:ADP401 4.9 50.7 1.0 CG2 D:VAL339 4.9 35.0 1.0 PA D:ADP401 4.9 35.9 1.0 CA D:GLY156 4.9 42.0 1.0 CG D:ASP154 5.0 54.4 1.0

Magnesium binding site 5 out of 7 in the Cryo-Em Structure of the Free Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:26.2 occ:1.00 O3B E:ADP401 2.5 44.6 1.0 OE1 E:GLN137 3.4 55.1 1.0 O2A E:ADP401 3.4 43.4 1.0 PB E:ADP401 3.7 35.5 1.0 OD1 E:ASP154 3.9 57.1 1.0 O2B E:ADP401 4.0 48.0 1.0 CD E:GLN137 4.2 47.9 1.0 OD2 E:ASP11 4.5 60.5 1.0 PA E:ADP401 4.6 30.6 1.0 CA E:GLY156 4.6 40.7 1.0 O3A E:ADP401 4.6 41.5 1.0 NE2 E:GLN137 4.6 45.2 1.0 NZ E:LYS18 4.6 48.6 1.0 CG2 E:VAL339 4.7 37.6 1.0 CG E:ASP154 4.8 52.6 1.0 CA E:GLY13 4.8 53.3 1.0 O1B E:ADP401 4.9 48.9 1.0 OD2 E:ASP154 4.9 55.0 1.0 OD1 E:ASP11 5.0 66.4 1.0

Magnesium binding site 6 out of 7 in the Cryo-Em Structure of the Free Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg402 b:38.2 occ:1.00 O3B F:ADP401 2.0 43.9 1.0 PB F:ADP401 3.4 41.3 1.0 O2A F:ADP401 3.5 45.0 1.0 O2B F:ADP401 3.9 55.8 1.0 OE1 F:GLN137 4.0 54.3 1.0 O3A F:ADP401 4.3 44.3 1.0 OD1 F:ASP154 4.3 58.1 1.0 NZ F:LYS18 4.3 46.6 1.0 NE2 F:GLN137 4.3 45.0 1.0 OD2 F:ASP11 4.4 62.5 1.0 CD F:GLN137 4.4 46.9 1.0 O1B F:ADP401 4.4 47.2 1.0 CA F:GLY13 4.4 49.7 1.0 PA F:ADP401 4.5 35.4 1.0 CA F:GLY156 4.6 41.6 1.0 OD1 F:ASP11 4.7 65.3 1.0 CG F:ASP11 4.9 62.9 1.0

Magnesium binding site 7 out of 7 in the Cryo-Em Structure of the Free Pointed 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 Pointed End of F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg402 b:34.9 occ:1.00 O3B G:ADP401 2.0 46.9 1.0 O2A G:ADP401 3.4 50.9 1.0 PB G:ADP401 3.5 43.1 1.0 OE1 G:GLN137 3.6 67.0 1.0 O2B G:ADP401 4.1 60.4 1.0 O3A G:ADP401 4.1 44.6 1.0 PA G:ADP401 4.3 40.1 1.0 OD2 G:ASP11 4.4 72.1 1.0 CD G:GLN137 4.4 60.6 1.0 NZ G:LYS18 4.5 54.9 1.0 O1B G:ADP401 4.6 58.2 1.0 NE2 G:GLN137 4.6 57.2 1.0 CA G:GLY13 4.6 55.7 1.0 OD1 G:ASP11 4.8 72.8 1.0 CA G:GLY156 4.8 39.7 1.0 O1A G:ADP401 4.9 58.0 1.0 OD2 G:ASP154 4.9 59.8 1.0 OD1 G:ASP154 4.9 61.2 1.0 CG G:ASP11 4.9 69.9 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