Magnesium in PDB 8a2t: Cryo-Em Structure of F-Actin in the MG2+-Adp Nucleotide State.

The binding sites of Magnesium atom in the Cryo-Em Structure of F-Actin in the MG2+-Adp Nucleotide State. (pdb code 8a2t). 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 the MG2+-Adp Nucleotide State., PDB code: 8a2t:
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 the MG2+-Adp Nucleotide State.


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 the MG2+-Adp Nucleotide State. within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:37.1 occ:1.00 O C:HOH544 1.9 25.4 1.0 O C:HOH545 1.9 27.6 1.0 O2B C:ADP401 2.0 31.5 1.0 O C:HOH541 2.0 27.3 1.0 O C:HOH566 2.1 28.1 1.0 O C:HOH505 2.4 27.9 1.0 PB C:ADP401 3.2 31.5 1.0 O3B C:ADP401 3.7 31.5 1.0 O3A C:ADP401 3.8 31.5 1.0 OE1 C:GLN137 4.1 33.0 1.0 O C:HOH580 4.1 27.7 1.0 O2A C:ADP401 4.3 31.5 1.0 OD2 C:ASP11 4.4 36.5 1.0 CA C:GLY13 4.4 35.3 1.0 CD C:GLN137 4.4 33.0 1.0 NE2 C:GLN137 4.5 33.0 1.0 O1B C:ADP401 4.5 31.5 1.0 OD1 C:ASP11 4.5 36.5 1.0 CA C:GLY156 4.5 27.6 1.0 OD2 C:ASP154 4.5 27.3 1.0 PA C:ADP401 4.6 31.5 1.0 NZ C:LYS18 4.6 34.7 1.0 OD1 C:ASP154 4.7 27.3 1.0 CG C:ASP11 4.8 36.5 1.0

Magnesium binding site 2 out of 5 in the Cryo-Em Structure of F-Actin in the MG2+-Adp Nucleotide State.


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 the MG2+-Adp Nucleotide State. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:37.1 occ:1.00 O A:HOH519 1.9 34.6 1.0 O A:HOH538 1.9 31.6 1.0 O2B A:ADP401 2.0 31.5 1.0 O A:HOH569 2.0 33.1 1.0 O A:HOH522 2.0 33.3 1.0 O A:HOH529 2.1 33.3 1.0 PB A:ADP401 3.2 31.5 1.0 O3B A:ADP401 3.7 31.5 1.0 O3A A:ADP401 3.8 31.5 1.0 OE1 A:GLN137 4.1 33.0 1.0 O A:HOH556 4.2 29.4 1.0 O2A A:ADP401 4.3 31.5 1.0 OD2 A:ASP11 4.4 36.5 1.0 CA A:GLY13 4.4 35.3 1.0 CD A:GLN137 4.4 33.0 1.0 NE2 A:GLN137 4.5 33.0 1.0 O1B A:ADP401 4.5 31.5 1.0 OD1 A:ASP11 4.5 36.5 1.0 CA A:GLY156 4.5 27.6 1.0 OD2 A:ASP154 4.5 27.3 1.0 PA A:ADP401 4.6 31.5 1.0 NZ A:LYS18 4.6 34.7 1.0 OD1 A:ASP154 4.7 27.3 1.0 CG A:ASP11 4.9 36.5 1.0

Magnesium binding site 3 out of 5 in the Cryo-Em Structure of F-Actin in the MG2+-Adp Nucleotide State.


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 the MG2+-Adp Nucleotide State. within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:37.1 occ:1.00 O B:HOH528 1.9 25.3 1.0 O2B B:ADP401 2.0 31.5 1.0 O B:HOH552 2.0 28.4 1.0 O B:HOH523 2.1 29.3 1.0 O B:HOH539 2.4 29.2 1.0 O B:HOH503 2.4 29.3 1.0 PB B:ADP401 3.2 31.5 1.0 O3B B:ADP401 3.7 31.5 1.0 O3A B:ADP401 3.8 31.5 1.0 OE1 B:GLN137 4.1 33.0 1.0 O B:HOH571 4.2 27.3 1.0 O2A B:ADP401 4.3 31.5 1.0 OD2 B:ASP11 4.4 36.5 1.0 CA B:GLY13 4.4 35.3 1.0 CD B:GLN137 4.4 33.0 1.0 NE2 B:GLN137 4.5 33.0 1.0 O1B B:ADP401 4.5 31.5 1.0 OD1 B:ASP11 4.5 36.5 1.0 CA B:GLY156 4.5 27.6 1.0 OD2 B:ASP154 4.5 27.3 1.0 PA B:ADP401 4.6 31.5 1.0 NZ B:LYS18 4.6 34.7 1.0 OD1 B:ASP154 4.7 27.3 1.0 CG B:ASP11 4.9 36.5 1.0

Magnesium binding site 4 out of 5 in the Cryo-Em Structure of F-Actin in the MG2+-Adp Nucleotide State.


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 the MG2+-Adp Nucleotide State. within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:37.1 occ:1.00 O D:HOH536 1.9 24.8 1.0 O D:HOH546 2.0 26.4 1.0 O D:HOH539 2.0 28.8 1.0 O D:HOH531 2.0 27.5 1.0 O2B D:ADP401 2.0 31.5 1.0 O D:HOH505 2.3 28.4 1.0 PB D:ADP401 3.2 31.5 1.0 O3B D:ADP401 3.7 31.5 1.0 O3A D:ADP401 3.8 31.5 1.0 OE1 D:GLN137 4.1 33.0 1.0 O D:HOH555 4.2 27.9 1.0 O2A D:ADP401 4.3 31.5 1.0 OD2 D:ASP11 4.4 36.5 1.0 CA D:GLY13 4.4 35.3 1.0 CD D:GLN137 4.4 33.0 1.0 NE2 D:GLN137 4.5 33.0 1.0 O1B D:ADP401 4.5 31.5 1.0 OD1 D:ASP11 4.5 36.5 1.0 CA D:GLY156 4.5 27.6 1.0 OD2 D:ASP154 4.5 27.3 1.0 PA D:ADP401 4.6 31.5 1.0 NZ D:LYS18 4.6 34.7 1.0 OD1 D:ASP154 4.7 27.3 1.0 CG D:ASP11 4.8 36.5 1.0

Magnesium binding site 5 out of 5 in the Cryo-Em Structure of F-Actin in the MG2+-Adp Nucleotide State.


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 the MG2+-Adp Nucleotide State. within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:37.1 occ:1.00 O E:HOH522 1.9 33.6 1.0 O E:HOH544 2.0 32.3 1.0 O E:HOH521 2.0 30.5 1.0 O2B E:ADP401 2.0 31.5 1.0 O E:HOH523 2.1 33.1 1.0 O E:HOH503 2.4 35.3 1.0 PB E:ADP401 3.2 31.5 1.0 O3B E:ADP401 3.7 31.5 1.0 O3A E:ADP401 3.8 31.5 1.0 OE1 E:GLN137 4.1 33.0 1.0 O2A E:ADP401 4.3 31.5 1.0 OD2 E:ASP11 4.4 36.5 1.0 CA E:GLY13 4.4 35.3 1.0 CD E:GLN137 4.4 33.0 1.0 NE2 E:GLN137 4.5 33.0 1.0 O1B E:ADP401 4.5 31.5 1.0 OD1 E:ASP11 4.5 36.5 1.0 CA E:GLY156 4.5 27.6 1.0 O E:HOH517 4.5 31.8 1.0 OD2 E:ASP154 4.5 27.3 1.0 PA E:ADP401 4.6 31.5 1.0 NZ E:LYS18 4.6 34.7 1.0 OD1 E:ASP154 4.7 27.3 1.0 CG E:ASP11 4.8 36.5 1.0 O E:HOH552 5.0 33.3 1.0

W.Oosterheert, B.U.Klink, A.Belyy, S.Pospich, S.Raunser. Structural Basis of Actin Filament Assembly and Aging. Nature V. 611 374 2022.
ISSN: ESSN 1476-4687
PubMed: 36289337
DOI: 10.1038/S41586-022-05241-8