Magnesium in PDB 8dnh: Cryo-Em Structure of Nonmuscle Beta-Actin

The binding sites of Magnesium atom in the Cryo-Em Structure of Nonmuscle Beta-Actin (pdb code 8dnh). 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 Nonmuscle Beta-Actin, PDB code: 8dnh:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Cryo-Em Structure of Nonmuscle Beta-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 Nonmuscle Beta-Actin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg400 b:89.6 occ:1.00 O2B A:ADP401 2.8 128.3 1.0 OD1 A:ASP153 3.4 99.1 1.0 O3A A:ADP401 3.8 119.7 1.0 PB A:ADP401 3.8 127.4 1.0 OD2 A:ASP153 3.9 104.9 1.0 CA A:GLY155 4.0 79.8 1.0 CG A:ASP153 4.1 100.3 1.0 O3B A:ADP401 4.3 128.6 1.0 N A:GLY155 4.4 70.0 1.0 CG2 A:VAL338 4.5 81.5 1.0 CA A:GLY300 4.5 63.4 1.0 OE1 A:GLN136 4.8 90.6 1.0 C A:SER154 4.8 71.4 1.0 O A:SER154 4.9 80.2 1.0

Magnesium binding site 2 out of 4 in the Cryo-Em Structure of Nonmuscle Beta-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 Nonmuscle Beta-Actin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg400 b:89.6 occ:1.00 O2B B:ADP401 2.7 128.3 1.0 O3B B:ADP401 3.2 128.6 1.0 PB B:ADP401 3.3 127.4 1.0 O3A B:ADP401 3.5 119.7 1.0 OD1 B:ASP153 3.8 99.1 1.0 OD2 B:ASP153 4.0 104.9 1.0 CG2 B:VAL338 4.0 81.5 1.0 O2A B:ADP401 4.3 114.4 1.0 CG B:ASP153 4.3 100.3 1.0 CA B:GLY300 4.5 63.4 1.0 CA B:GLY155 4.6 79.8 1.0 PA B:ADP401 4.6 122.5 1.0 CB B:VAL338 4.6 78.0 1.0 O1B B:ADP401 4.8 108.9 1.0 OE1 B:GLN136 5.0 90.6 1.0

Magnesium binding site 3 out of 4 in the Cryo-Em Structure of Nonmuscle Beta-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 Nonmuscle Beta-Actin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg400 b:89.6 occ:1.00 O2B C:ADP401 2.4 128.3 1.0 O3A C:ADP401 3.2 119.7 1.0 PB C:ADP401 3.3 127.4 1.0 O3B C:ADP401 3.6 128.6 1.0 OD1 C:ASP153 3.7 99.1 1.0 CA C:GLY155 4.0 79.8 1.0 OD2 C:ASP153 4.1 104.9 1.0 CG C:ASP153 4.3 100.3 1.0 O2A C:ADP401 4.4 114.4 1.0 PA C:ADP401 4.5 122.5 1.0 N C:GLY155 4.5 70.0 1.0 CG2 C:VAL338 4.6 81.5 1.0 CA C:GLY300 4.6 63.4 1.0 O1B C:ADP401 4.7 108.9 1.0 OE1 C:GLN136 4.8 90.6 1.0 C C:SER154 5.0 71.4 1.0

Magnesium binding site 4 out of 4 in the Cryo-Em Structure of Nonmuscle Beta-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 Nonmuscle Beta-Actin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg400 b:89.6 occ:1.00 O2B D:ADP401 2.3 128.3 1.0 PB D:ADP401 3.4 127.4 1.0 O3B D:ADP401 3.6 128.6 1.0 O3A D:ADP401 3.7 119.7 1.0 OD1 D:ASP153 3.8 99.1 1.0 OE1 D:GLN136 4.1 90.6 1.0 OD2 D:ASP153 4.2 104.9 1.0 CG2 D:VAL338 4.4 81.5 1.0 CG D:ASP153 4.5 100.3 1.0 CA D:GLY155 4.5 79.8 1.0 CD D:GLN136 4.7 90.3 1.0 O1B D:ADP401 4.7 108.9 1.0 OD2 D:ASP10 4.8 91.8 1.0 CB D:VAL338 4.9 78.0 1.0 N D:GLY155 5.0 70.0 1.0 O2A D:ADP401 5.0 114.4 1.0

A.S.Arora, H.L.Huang, R.Singh, Y.Narui, A.Suchenko, T.Hatano, S.M.Heissler, M.K.Balasubramanian, K.Chinthalapudi. Structural Insights Into Actin Isoforms. Elife V. 12 2023.
ISSN: ESSN 2050-084X
PubMed: 36790143
DOI: 10.7554/ELIFE.82015