Magnesium in PDB 8sp3: Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid

The binding sites of Magnesium atom in the Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid (pdb code 8sp3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid, PDB code: 8sp3:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:45.7 occ:1.00 OP1 C:A3 2.0 54.0 1.0 OP2 C:U1 2.4 59.0 1.0 O B:ILE507 2.7 46.2 1.0 OD1 B:ASN468 2.8 56.0 1.0 ND2 B:ASN468 2.9 56.0 1.0 CG B:ASN468 3.2 56.0 1.0 P C:A3 3.4 54.0 1.0 P C:U1 3.4 59.0 1.0 O3' C:G2 3.7 56.6 1.0 C B:ILE507 3.9 46.2 1.0 NZ B:LYS263 4.0 47.1 1.0 O5' C:A3 4.3 54.0 1.0 O5' C:U1 4.4 59.0 1.0 OP2 C:A3 4.4 54.0 1.0 C5' C:U1 4.5 59.0 1.0 OP1 C:U1 4.5 59.0 1.0 CB B:ILE507 4.6 46.2 1.0 CA B:ILE507 4.7 46.2 1.0 CB B:ASN468 4.7 56.0 1.0 OXT B:ILE507 4.7 46.2 1.0

Magnesium binding site 2 out of 2 in the Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Asymmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg601 b:54.0 occ:1.00 OP2 G:U1 1.9 61.5 1.0 OXT F:ILE507 2.1 43.9 1.0 P G:U1 2.3 61.5 1.0 OP1 G:U1 2.7 61.5 1.0 C F:ILE507 3.0 43.9 1.0 NZ F:LYS263 3.3 39.2 1.0 O F:ILE507 3.4 43.9 1.0 OD1 F:ASN468 3.8 46.7 1.0 O5' G:U1 3.9 61.5 1.0 CE F:LYS263 3.9 39.2 1.0 NE2 F:GLN222 4.1 48.6 1.0 CA F:ILE507 4.2 43.9 1.0 OP1 G:A3 4.2 54.5 1.0 NZ F:LYS211 4.4 53.6 1.0 OE1 F:GLN222 4.5 48.6 1.0 CD F:GLN222 4.6 48.6 1.0 C5' G:U1 4.6 61.5 1.0 CG F:ASN468 4.8 46.7 1.0 CB F:ILE507 4.8 43.9 1.0 O3' G:G2 4.9 53.1 1.0 ND2 F:ASN468 5.0 46.7 1.0

Z.Shen, X.Y.Yang, S.Xia, W.Huang, D.J.Taylor, K.Nakanishi, T.M.Fu. Oligomerization-Mediated Activation of A Short Prokaryotic Argonaute. Nature 2023.
ISSN: ESSN 1476-4687
PubMed: 37494956
DOI: 10.1038/S41586-023-06456-Z