Magnesium in PDB 8sp0: Symmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid

The binding sites of Magnesium atom in the Symmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid (pdb code 8sp0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Symmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid, PDB code: 8sp0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Symmetric 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 Symmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:20.2 occ:1.00 OP2 C:U1 2.0 31.9 1.0 OP1 C:A3 2.6 32.8 1.0 OD1 B:ASN468 2.7 34.8 1.0 O B:ILE507 2.9 31.2 1.0 NZ B:LYS263 2.9 22.5 1.0 P C:U1 3.4 32.0 1.0 CG B:ASN468 3.5 33.7 1.0 ND2 B:ASN468 3.6 33.2 1.0 P C:A3 4.0 21.0 1.0 O5' C:U1 4.0 24.9 1.0 C B:ILE507 4.1 33.0 1.0 CE B:LYS263 4.1 16.0 1.0 O3' C:G2 4.1 15.0 1.0 OE1 B:GLN222 4.3 26.2 1.0 NE2 B:GLN222 4.3 31.8 1.0 C5' C:U1 4.4 21.6 1.0 OP1 C:U1 4.4 36.2 1.0 CD B:GLN222 4.7 26.7 1.0 OXT B:ILE507 4.8 32.6 1.0 O5' C:A3 4.9 29.3 1.0 CA B:ILE507 4.9 25.1 1.0 CB B:ASN468 5.0 21.2 1.0 CB B:ILE507 5.0 20.8 1.0 OP2 C:A3 5.0 31.1 1.0

Magnesium binding site 2 out of 2 in the Symmetric 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 Symmetric Dimer of Mapsparta Bound with Grna/Tdna Hybrid within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg601 b:38.1 occ:1.00 OP2 G:U1 2.1 35.6 1.0 OP1 G:A3 2.2 38.7 1.0 ND2 F:ASN468 3.0 33.0 1.0 OXT F:ILE507 3.0 20.5 1.0 OD1 F:ASN468 3.4 25.2 1.0 P G:U1 3.4 23.6 1.0 CG F:ASN468 3.5 29.0 1.0 P G:A3 3.6 20.0 1.0 C F:ILE507 4.0 26.6 1.0 O3' G:G2 4.1 22.2 1.0 OP1 G:U1 4.2 31.2 1.0 OP2 G:A3 4.5 39.6 1.0 O5' G:U1 4.5 29.9 1.0 CA F:ILE507 4.5 17.3 1.0 O5' G:A3 4.6 40.3 1.0 CB F:ILE507 4.6 17.8 1.0 C5' G:U1 4.6 34.4 1.0 NE2 F:GLN222 4.9 28.0 1.0 CB F:ASN468 4.9 26.8 1.0 O F:ILE507 5.0 27.4 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