Magnesium in PDB 7k20: Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments

The binding sites of Magnesium atom in the Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments (pdb code 7k20). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments, PDB code: 7k20:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments


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 Pyrene-Labeled Adp-Actin Filaments within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg801 b:60.3 occ:1.00 O2B A:ADP802 2.4 66.0 1.0 O1B A:ADP802 3.0 66.0 1.0 PB A:ADP802 3.2 66.0 1.0 OE1 A:GLN137 3.4 71.9 1.0 O3A A:ADP802 3.9 66.0 1.0 CD A:GLN137 3.9 71.9 1.0 NE2 A:GLN137 3.9 71.9 1.0 O1A A:ADP802 4.0 66.0 1.0 OD2 A:ASP11 4.2 74.5 1.0 OD1 A:ASP11 4.2 74.5 1.0 CA A:GLY13 4.3 70.1 1.0 CA A:GLY156 4.5 65.0 1.0 PA A:ADP802 4.5 66.0 1.0 O3B A:ADP802 4.5 66.0 1.0 OD2 A:ASP154 4.6 66.4 1.0 NZ A:LYS18 4.6 68.0 1.0 CG A:ASP11 4.6 74.5 1.0 CE A:LYS18 4.9 68.0 1.0 CG2 A:VAL339 5.0 67.6 1.0

Magnesium binding site 2 out of 4 in the Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments


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 Pyrene-Labeled Adp-Actin Filaments within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg801 b:56.1 occ:1.00 O1B B:ADP802 2.1 63.6 1.0 PB B:ADP802 3.1 63.6 1.0 O2B B:ADP802 3.1 63.6 1.0 OE1 B:GLN137 3.2 70.2 1.0 CD B:GLN137 3.7 70.2 1.0 OD2 B:ASP11 3.8 71.5 1.0 NE2 B:GLN137 3.8 70.2 1.0 OD1 B:ASP11 3.9 71.5 1.0 O3A B:ADP802 4.0 63.6 1.0 CG B:ASP11 4.3 71.5 1.0 CA B:GLY13 4.3 66.6 1.0 O3B B:ADP802 4.4 63.6 1.0 OD2 B:ASP154 4.7 65.0 1.0 O1A B:ADP802 4.7 63.6 1.0 CG2 B:VAL339 4.7 64.5 1.0 NZ B:LYS18 4.7 65.0 1.0 CE B:LYS18 4.8 65.0 1.0 CA B:GLY156 4.8 62.2 1.0 CG B:GLN137 4.9 70.2 1.0 PA B:ADP802 4.9 63.6 1.0

Magnesium binding site 3 out of 4 in the Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments


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 Pyrene-Labeled Adp-Actin Filaments within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg801 b:51.7 occ:1.00 O1B C:ADP802 2.2 63.3 1.0 O2B C:ADP802 2.8 63.3 1.0 PB C:ADP802 2.9 63.3 1.0 OE1 C:GLN137 3.5 68.9 1.0 O3A C:ADP802 3.7 63.3 1.0 CD C:GLN137 4.1 68.9 1.0 O1A C:ADP802 4.1 63.3 1.0 OD2 C:ASP11 4.1 69.9 1.0 NE2 C:GLN137 4.2 68.9 1.0 O3B C:ADP802 4.3 63.3 1.0 OD1 C:ASP11 4.3 69.9 1.0 CA C:GLY13 4.4 67.0 1.0 CA C:GLY156 4.4 62.8 1.0 PA C:ADP802 4.5 63.3 1.0 OD2 C:ASP154 4.6 64.5 1.0 NZ C:LYS18 4.6 64.9 1.0 CG C:ASP11 4.6 69.9 1.0 CE C:LYS18 4.9 64.9 1.0 CG2 C:VAL339 5.0 62.6 1.0

Magnesium binding site 4 out of 4 in the Cryo-Em Structure of Pyrene-Labeled Adp-Actin Filaments


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 Pyrene-Labeled Adp-Actin Filaments within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg801 b:56.1 occ:1.00 O1B D:ADP802 2.2 65.3 1.0 PB D:ADP802 3.1 65.3 1.0 O2B D:ADP802 3.1 65.3 1.0 OE1 D:GLN137 3.1 70.8 1.0 CD D:GLN137 3.8 70.8 1.0 O3A D:ADP802 3.8 65.3 1.0 NE2 D:GLN137 4.0 70.8 1.0 OD2 D:ASP11 4.1 72.4 1.0 OD1 D:ASP11 4.2 72.4 1.0 CA D:GLY13 4.4 69.0 1.0 O3B D:ADP802 4.4 65.3 1.0 CA D:GLY156 4.5 64.8 1.0 OD2 D:ASP154 4.5 65.8 1.0 O1A D:ADP802 4.6 65.3 1.0 CG D:ASP11 4.6 72.4 1.0 NZ D:LYS18 4.7 66.4 1.0 PA D:ADP802 4.8 65.3 1.0 CG2 D:VAL339 4.9 64.5 1.0 OD1 D:ASP154 4.9 65.8 1.0 CG D:GLN137 5.0 70.8 1.0

S.Z.Chou, T.D.Pollard. Cryo-Electron Microscopy Structures of Pyrene-Labeled Adp-P I - and Adp-Actin Filaments. Nat Commun V. 11 5897 2020.
ISSN: ESSN 2041-1723
PubMed: 33214556
DOI: 10.1038/S41467-020-19762-1