Magnesium in PDB 7ola: Structure of Primase-Helicase in SAPI5

The binding sites of Magnesium atom in the Structure of Primase-Helicase in SAPI5 (pdb code 7ola). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of Primase-Helicase in SAPI5, PDB code: 7ola:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of Primase-Helicase in SAPI5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Primase-Helicase in SAPI5 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1202 b:67.6 occ:1.00 O2B B:ANP1201 2.0 78.6 1.0 O1G B:ANP1201 2.6 78.6 1.0 PB B:ANP1201 3.3 78.6 1.0 NH2 A:ARG624 3.6 86.1 1.0 N3B B:ANP1201 3.7 78.6 1.0 PG B:ANP1201 3.7 78.6 1.0 OD2 A:ASP584 3.8 83.8 1.0 N B:GLY522 4.2 72.7 1.0 O3A B:ANP1201 4.3 78.6 1.0 CA B:GLY522 4.3 72.7 1.0 O1B B:ANP1201 4.4 78.6 1.0 O B:ASP563 4.5 82.0 1.0 O3G B:ANP1201 4.5 78.6 1.0 O1A B:ANP1201 4.7 78.6 1.0 NZ B:LYS521 4.7 70.5 1.0 CE B:LYS521 4.8 70.5 1.0 CZ A:ARG624 4.8 86.1 1.0 O2G B:ANP1201 4.9 78.6 1.0 PA B:ANP1201 4.9 78.6 1.0 O2A B:ANP1201 4.9 78.6 1.0 CG A:ASP584 5.0 83.8 1.0 OD1 B:ASP564 5.0 83.5 1.0

Magnesium binding site 2 out of 3 in the Structure of Primase-Helicase in SAPI5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Primase-Helicase in SAPI5 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1203 b:62.4 occ:1.00 O3A C:ANP1201 3.4 78.5 1.0 N3B C:ANP1201 3.4 78.5 1.0 O2B C:ANP1201 3.5 78.5 1.0 NH2 B:ARG624 3.6 73.6 1.0 OD2 B:ASP584 3.7 78.6 1.0 PB C:ANP1201 3.7 78.5 1.0 O3G C:ANP1201 3.9 78.5 1.0 O1A C:ANP1201 4.1 78.5 1.0 PG C:ANP1201 4.2 78.5 1.0 N C:GLY522 4.2 73.4 1.0 CA C:GLY522 4.3 73.4 1.0 PA C:ANP1201 4.3 78.5 1.0 O C:ASP563 4.5 85.2 1.0 O1G C:ANP1201 4.6 78.5 1.0 CG B:ASP584 4.6 78.6 1.0 OD1 B:ASP584 4.8 78.6 1.0 O2A C:ANP1201 4.8 78.5 1.0 CZ B:ARG624 4.9 73.6 1.0 OD2 C:ASP564 5.0 86.4 1.0

Magnesium binding site 3 out of 3 in the Structure of Primase-Helicase in SAPI5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Primase-Helicase in SAPI5 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1202 b:96.6 occ:1.00 O1B D:ANP1201 2.1 108.7 1.0 O3G D:ANP1201 2.2 108.7 1.0 PG D:ANP1201 3.3 108.7 1.0 PB D:ANP1201 3.3 108.7 1.0 N3B D:ANP1201 3.4 108.7 1.0 O2G D:ANP1201 3.8 108.7 1.0 NH2 C:ARG624 3.8 94.5 1.0 O2A D:ANP1201 4.2 108.7 1.0 CG D:LYS521 4.3 101.1 1.0 CA D:GLY522 4.3 97.4 1.0 N D:GLY522 4.3 97.4 1.0 O3A D:ANP1201 4.3 108.7 1.0 O2B D:ANP1201 4.3 108.7 1.0 OD2 C:ASP584 4.4 95.0 1.0 O1G D:ANP1201 4.6 108.7 1.0 O D:ASP563 4.6 111.8 1.0 CD D:LYS521 4.6 101.1 1.0 PA D:ANP1201 4.8 108.7 1.0 OD1 C:ASP584 5.0 95.0 1.0

C.Qiao, G.Debiasi-Anders, I.Mir-Sanchis. Staphylococcal Self-Loading Helicases Couple the Staircase Mechanism with Inter Domain High Flexibility. Nucleic Acids Res. V. 50 8349 2022.
ISSN: ESSN 1362-4962
PubMed: 35871290
DOI: 10.1093/NAR/GKAC625