Magnesium in PDB 8d14: Helical Adp-Pi-F-Actin

The binding sites of Magnesium atom in the Helical Adp-Pi-F-Actin (pdb code 8d14). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Helical Adp-Pi-F-Actin, PDB code: 8d14:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Helical Adp-Pi-F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Helical Adp-Pi-F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:15.8 occ:1.00 O A:HOH548 2.1 16.3 1.0 O A:HOH587 2.1 16.2 1.0 O A:HOH566 2.1 16.9 1.0 O2 A:PO4403 2.1 18.5 1.0 O3B A:ADP401 2.3 17.6 1.0 O A:HOH504 2.3 18.5 1.0 P A:PO4403 3.5 18.5 1.0 PB A:ADP401 3.6 17.6 1.0 O2B A:ADP401 4.0 17.6 1.0 O1 A:PO4403 4.0 18.5 1.0 O3 A:PO4403 4.1 18.5 1.0 OE1 A:GLN137 4.1 20.6 1.0 OD2 A:ASP154 4.2 17.9 1.0 NZ A:LYS18 4.2 20.1 1.0 OD2 A:ASP11 4.2 21.2 1.0 O3A A:ADP401 4.3 17.6 1.0 O2A A:ADP401 4.3 17.6 1.0 O A:HOH509 4.4 20.8 1.0 CD A:GLN137 4.4 20.6 1.0 OD1 A:ASP11 4.5 21.2 1.0 O A:HOH513 4.6 16.4 1.0 O4 A:PO4403 4.6 18.5 1.0 CA A:GLY13 4.6 19.1 1.0 CA A:GLY156 4.6 16.5 1.0 NE2 A:GLN137 4.7 20.6 1.0 O1B A:ADP401 4.7 17.6 1.0 CG A:ASP11 4.8 21.2 1.0 PA A:ADP401 4.8 17.6 1.0 O A:HOH518 4.8 20.2 1.0 CG2 A:VAL339 4.9 19.9 1.0

Magnesium binding site 2 out of 3 in the Helical Adp-Pi-F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Helical Adp-Pi-F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:20.4 occ:1.00 O B:HOH562 2.1 20.3 1.0 O B:HOH583 2.1 20.4 1.0 O B:HOH534 2.1 21.7 1.0 O2 B:PO4403 2.1 21.6 1.0 O3B B:ADP401 2.3 21.7 1.0 O B:HOH501 2.4 21.5 1.0 P B:PO4403 3.5 21.6 1.0 PB B:ADP401 3.6 21.7 1.0 O2B B:ADP401 3.9 21.7 1.0 O B:HOH559 4.0 24.4 1.0 O1 B:PO4403 4.0 21.6 1.0 O3 B:PO4403 4.1 21.6 1.0 OD2 B:ASP154 4.2 21.3 1.0 NZ B:LYS18 4.2 24.5 1.0 OD2 B:ASP11 4.2 25.1 1.0 OE1 B:GLN137 4.3 24.1 1.0 O3A B:ADP401 4.3 21.7 1.0 O2A B:ADP401 4.3 21.7 1.0 CD B:GLN137 4.5 24.1 1.0 OD1 B:ASP11 4.5 25.1 1.0 O4 B:PO4403 4.6 21.6 1.0 CA B:GLY13 4.6 23.3 1.0 CA B:GLY156 4.6 20.0 1.0 NE2 B:GLN137 4.7 24.1 1.0 O B:HOH509 4.7 19.6 1.0 O1B B:ADP401 4.7 21.7 1.0 CG B:ASP11 4.8 25.1 1.0 PA B:ADP401 4.8 21.7 1.0 O B:HOH519 4.9 23.0 1.0 CG2 B:VAL339 4.9 23.3 1.0

Magnesium binding site 3 out of 3 in the Helical Adp-Pi-F-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Helical Adp-Pi-F-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:17.6 occ:1.00 O C:HOH546 2.1 16.1 1.0 O C:HOH594 2.1 17.4 1.0 O C:HOH562 2.1 17.7 1.0 O2 C:PO4403 2.1 19.0 1.0 O C:HOH524 2.2 19.1 1.0 O3B C:ADP401 2.3 18.4 1.0 P C:PO4403 3.5 19.0 1.0 PB C:ADP401 3.6 18.4 1.0 O2B C:ADP401 4.0 18.4 1.0 O1 C:PO4403 4.0 19.0 1.0 O3 C:PO4403 4.1 19.0 1.0 OD2 C:ASP154 4.2 19.1 1.0 OE1 C:GLN137 4.2 21.2 1.0 NZ C:LYS18 4.2 19.9 1.0 O C:HOH531 4.2 21.4 1.0 OD2 C:ASP11 4.2 21.1 1.0 O3A C:ADP401 4.2 18.4 1.0 O2A C:ADP401 4.3 18.4 1.0 CD C:GLN137 4.4 21.2 1.0 OD1 C:ASP11 4.5 21.1 1.0 O C:HOH508 4.6 18.8 1.0 O4 C:PO4403 4.6 19.0 1.0 CA C:GLY13 4.6 18.8 1.0 O C:HOH517 4.6 18.5 1.0 CA C:GLY156 4.6 16.9 1.0 NE2 C:GLN137 4.7 21.2 1.0 O1B C:ADP401 4.7 18.4 1.0 CG C:ASP11 4.8 21.1 1.0 PA C:ADP401 4.8 18.4 1.0 CG2 C:VAL339 4.9 20.7 1.0

M.J.Reynolds, C.Hachicho, A.G.Carl, R.Gong, G.M.Alushin. Bending Forces and Nucleotide State Jointly Regulate F-Actin Structure. Nature V. 611 380 2022.
ISSN: ESSN 1476-4687
PubMed: 36289330
DOI: 10.1038/S41586-022-05366-W