Magnesium in PDB 8yge: PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain

All present enzymatic activity of PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain:
5.6.2.2;

The binding sites of Magnesium atom in the PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain (pdb code 8yge). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain, PDB code: 8yge:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1201 b:145.2 occ:1.00 OD2 A:ASP541 2.7 166.3 1.0 OD2 A:ASP539 3.3 164.4 1.0 OE1 A:GLU438 3.8 161.1 1.0 CG A:ASP541 3.8 165.5 1.0 OD1 A:ASP541 4.2 167.8 1.0 CG A:ASP539 4.3 166.0 1.0 OE2 A:GLU438 4.4 163.1 1.0 CD A:GLU438 4.5 160.7 1.0 CB A:ASP539 4.6 161.9 1.0 C5' C:DT13 4.9 132.4 1.0 OP1 C:DA14 5.0 155.2 1.0

Magnesium binding site 2 out of 3 in the PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1201 b:126.7 occ:1.00 OD2 B:ASP541 2.7 151.8 1.0 OD2 B:ASP539 3.3 147.6 1.0 CG B:ASP541 3.9 151.3 1.0 C5' D:DT13 4.2 118.8 1.0 OE2 B:GLU438 4.3 151.6 1.0 CG B:ASP539 4.4 150.6 1.0 OP1 D:DT13 4.4 117.3 1.0 OD1 B:ASP541 4.6 153.6 1.0 OP1 E:DA14 4.8 166.2 1.0 CB B:ASP539 4.8 147.3 1.0 CB B:ASP541 5.0 142.6 1.0 O5' D:DT13 5.0 119.0 1.0

Magnesium binding site 3 out of 3 in the PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of PP1192R-Dna-M-Amsa Complex Dna Binding/Cleavage Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1202 b:144.4 occ:1.00 OH B:TYR800 2.2 146.6 1.0 OP2 C:DA14 2.8 154.7 1.0 CZ B:TYR800 3.1 150.0 1.0 CE1 B:TYR800 3.3 145.7 1.0 P C:DA14 3.7 172.9 1.0 OP1 C:DA14 4.0 155.2 1.0 O5' C:DA14 4.2 161.5 1.0 C2' C:DA14 4.2 143.6 1.0 CE2 B:TYR800 4.4 149.2 1.0 CD1 B:TYR800 4.6 144.9 1.0 C3' C:DA14 4.8 148.8 1.0

R.Liu, J.Sun, L.F.Li, Y.Cheng, M.Li, L.Fu, S.Li, G.Peng, Y.Wang, S.Liu, X.Qu, J.Ran, X.Li, E.Pang, H.J.Qiu, Y.Wang, J.Qi, H.Wang, G.F.Gao. Structural Basis For Difunctional Mechanism of M-Amsa Against African Swine Fever Virus PP1192R. Nucleic Acids Res. 2024.
ISSN: ESSN 1362-4962
PubMed: 39166497
DOI: 10.1093/NAR/GKAE703