Magnesium in PDB 6fhl: Cryo-Em Structure of F-Actin in Complex with Adp-Pi

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

Magnesium binding site 1 out of 5 in the Cryo-Em Structure of F-Actin in Complex with Adp-Pi


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 F-Actin in Complex with Adp-Pi within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:37.7 occ:1.00 O3 A:PO4403 2.0 37.0 1.0 O2B A:ADP401 2.0 35.7 1.0 PB A:ADP401 3.4 37.0 1.0 P A:PO4403 3.5 37.5 1.0 O2A A:ADP401 3.9 33.4 1.0 O3B A:ADP401 3.9 38.9 1.0 OE1 A:GLN137 4.0 42.7 1.0 O1 A:PO4403 4.2 38.9 1.0 OD2 A:ASP11 4.3 40.5 1.0 CD A:GLN137 4.3 42.5 1.0 O3A A:ADP401 4.3 31.2 1.0 O4 A:PO4403 4.3 40.5 1.0 OD2 A:ASP154 4.4 44.1 1.0 O1B A:ADP401 4.4 37.5 1.0 OD1 A:ASP154 4.4 43.2 1.0 O2 A:PO4403 4.4 36.3 1.0 NZ A:LYS18 4.4 35.8 1.0 OD1 A:ASP11 4.4 40.7 1.0 NE2 A:GLN137 4.5 45.5 1.0 PA A:ADP401 4.5 28.4 1.0 O1A A:ADP401 4.6 33.7 1.0 CA A:GLY156 4.7 34.6 1.0 CG A:ASP11 4.8 41.0 1.0 CA A:GLY13 4.8 38.7 1.0 CG A:ASP154 4.8 45.2 1.0 CG2 A:VAL339 4.9 37.0 1.0

Magnesium binding site 2 out of 5 in the Cryo-Em Structure of F-Actin in Complex with Adp-Pi


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 F-Actin in Complex with Adp-Pi within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:32.7 occ:1.00 O3 B:PO4403 2.0 33.0 1.0 O2B B:ADP401 2.0 32.2 1.0 PB B:ADP401 3.4 35.1 1.0 P B:PO4403 3.5 34.2 1.0 O2A B:ADP401 3.9 34.2 1.0 O3B B:ADP401 3.9 38.3 1.0 OE1 B:GLN137 4.0 38.9 1.0 O1 B:PO4403 4.2 35.4 1.0 OD2 B:ASP11 4.3 33.8 1.0 CD B:GLN137 4.3 39.3 1.0 O3A B:ADP401 4.3 29.3 1.0 O4 B:PO4403 4.3 37.4 1.0 OD2 B:ASP154 4.4 38.9 1.0 O1B B:ADP401 4.4 35.7 1.0 OD1 B:ASP154 4.4 37.4 1.0 O2 B:PO4403 4.4 34.5 1.0 NZ B:LYS18 4.4 32.9 1.0 OD1 B:ASP11 4.4 34.9 1.0 NE2 B:GLN137 4.5 41.2 1.0 PA B:ADP401 4.5 28.4 1.0 O1A B:ADP401 4.6 34.1 1.0 CA B:GLY156 4.7 30.9 1.0 CG B:ASP11 4.8 34.2 1.0 CA B:GLY13 4.8 33.3 1.0 CG B:ASP154 4.8 37.4 1.0 CG2 B:VAL339 4.9 32.7 1.0

Magnesium binding site 3 out of 5 in the Cryo-Em Structure of F-Actin in Complex with Adp-Pi


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 F-Actin in Complex with Adp-Pi within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:37.1 occ:1.00 O3 C:PO4403 2.0 35.1 1.0 O2B C:ADP401 2.0 34.3 1.0 PB C:ADP401 3.4 32.5 1.0 P C:PO4403 3.5 35.3 1.0 O2A C:ADP401 3.9 34.5 1.0 O3B C:ADP401 3.9 37.0 1.0 OE1 C:GLN137 4.0 37.9 1.0 O1 C:PO4403 4.2 35.4 1.0 OD2 C:ASP11 4.3 35.4 1.0 CD C:GLN137 4.3 37.8 1.0 O3A C:ADP401 4.3 29.1 1.0 O4 C:PO4403 4.3 38.0 1.0 OD2 C:ASP154 4.4 37.3 1.0 O1B C:ADP401 4.4 36.1 1.0 OD1 C:ASP154 4.4 35.2 1.0 O2 C:PO4403 4.4 35.0 1.0 NZ C:LYS18 4.4 33.3 1.0 OD1 C:ASP11 4.4 34.2 1.0 NE2 C:GLN137 4.5 41.2 1.0 PA C:ADP401 4.5 27.0 1.0 O1A C:ADP401 4.6 33.8 1.0 CA C:GLY156 4.7 33.3 1.0 CG C:ASP11 4.8 35.9 1.0 CA C:GLY13 4.8 32.2 1.0 CG C:ASP154 4.8 35.8 1.0 CG2 C:VAL339 4.9 33.1 1.0

Magnesium binding site 4 out of 5 in the Cryo-Em Structure of F-Actin in Complex with Adp-Pi


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 F-Actin in Complex with Adp-Pi within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:33.1 occ:1.00 O3 D:PO4403 2.0 35.4 1.0 O2B D:ADP401 2.0 33.4 1.0 PB D:ADP401 3.4 35.1 1.0 P D:PO4403 3.5 35.8 1.0 O2A D:ADP401 3.9 34.1 1.0 O3B D:ADP401 3.9 38.0 1.0 OE1 D:GLN137 4.0 38.7 1.0 O1 D:PO4403 4.2 36.1 1.0 OD2 D:ASP11 4.3 34.6 1.0 CD D:GLN137 4.3 39.1 1.0 O3A D:ADP401 4.3 29.6 1.0 O4 D:PO4403 4.3 37.7 1.0 OD2 D:ASP154 4.4 37.3 1.0 O1B D:ADP401 4.4 37.4 1.0 OD1 D:ASP154 4.4 36.9 1.0 O2 D:PO4403 4.4 36.1 1.0 NZ D:LYS18 4.4 34.4 1.0 OD1 D:ASP11 4.4 34.2 1.0 NE2 D:GLN137 4.5 41.9 1.0 PA D:ADP401 4.5 29.6 1.0 O1A D:ADP401 4.6 34.9 1.0 CA D:GLY156 4.7 31.8 1.0 CG D:ASP11 4.8 34.2 1.0 CA D:GLY13 4.8 34.1 1.0 CG D:ASP154 4.8 36.6 1.0 CG2 D:VAL339 4.9 31.7 1.0

Magnesium binding site 5 out of 5 in the Cryo-Em Structure of F-Actin in Complex with Adp-Pi


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 F-Actin in Complex with Adp-Pi within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:36.8 occ:1.00 O3 E:PO4403 2.0 38.1 1.0 O2B E:ADP401 2.0 36.3 1.0 PB E:ADP401 3.4 39.0 1.0 P E:PO4403 3.5 39.9 1.0 O2A E:ADP401 3.9 36.5 1.0 O3B E:ADP401 3.9 43.6 1.0 OE1 E:GLN137 4.0 40.1 1.0 O1 E:PO4403 4.2 39.5 1.0 OD2 E:ASP11 4.3 39.3 1.0 CD E:GLN137 4.3 40.8 1.0 O3A E:ADP401 4.3 35.1 1.0 O4 E:PO4403 4.3 40.2 1.0 OD2 E:ASP154 4.4 41.6 1.0 O1B E:ADP401 4.4 39.7 1.0 OD1 E:ASP154 4.4 41.5 1.0 O2 E:PO4403 4.4 36.8 1.0 NZ E:LYS18 4.4 38.4 1.0 OD1 E:ASP11 4.4 41.8 1.0 NE2 E:GLN137 4.5 42.8 1.0 PA E:ADP401 4.5 33.2 1.0 O1A E:ADP401 4.6 37.6 1.0 CA E:GLY156 4.7 34.9 1.0 CG E:ASP11 4.8 41.1 1.0 CA E:GLY13 4.8 38.3 1.0 CG E:ASP154 4.8 44.1 1.0 CG2 E:VAL339 4.9 36.7 1.0

F.Merino, S.Pospich, J.Funk, T.Wagner, F.Kullmer, H.D.Arndt, P.Bieling, S.Raunser. Structural Transitions of F-Actin Upon Atp Hydrolysis at Near-Atomic Resolution Revealed By Cryo-Em. Nat. Struct. Mol. Biol. V. 25 528 2018.
ISSN: ESSN 1545-9985
PubMed: 29867215
DOI: 10.1038/S41594-018-0074-0