Magnesium in PDB 8wdb: Cryo-Em Structure of the Atp-Bound Dppabcd Complex

The binding sites of Magnesium atom in the Cryo-Em Structure of the Atp-Bound Dppabcd Complex (pdb code 8wdb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of the Atp-Bound Dppabcd Complex, PDB code: 8wdb:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of the Atp-Bound Dppabcd Complex


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 the Atp-Bound Dppabcd Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg603 b:42.9 occ:1.00 O2B D:ATP601 2.0 43.5 1.0 OG D:SER49 2.1 42.0 1.0 O1G D:ATP601 2.2 43.5 1.0 OE1 D:GLN98 2.3 42.6 1.0 CB D:SER49 3.2 42.0 1.0 CD D:GLN98 3.3 42.6 1.0 PG D:ATP601 3.3 43.5 1.0 PB D:ATP601 3.3 43.5 1.0 NE2 D:GLN98 3.6 42.6 1.0 O3B D:ATP601 3.7 43.5 1.0 O2G D:ATP601 3.7 43.5 1.0 O2A D:ATP601 3.9 43.5 1.0 N D:GLY434 4.3 38.9 1.0 N D:SER49 4.3 42.0 1.0 OD1 D:ASP178 4.3 44.1 1.0 CA D:SER49 4.4 42.0 1.0 O1B D:ATP601 4.4 43.5 1.0 O3A D:ATP601 4.4 43.5 1.0 OD2 D:ASP178 4.4 44.1 1.0 OG D:SER433 4.5 39.3 1.0 PA D:ATP601 4.6 43.5 1.0 CG D:GLN98 4.7 42.6 1.0 O3G D:ATP601 4.7 43.5 1.0 CA D:GLY434 4.7 38.9 1.0 CG D:ASP178 4.8 44.1 1.0 CB D:GLN98 5.0 42.6 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of the Atp-Bound Dppabcd Complex


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 the Atp-Bound Dppabcd Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg604 b:45.1 occ:1.00 O2B D:ATP602 2.2 39.8 1.0 OE1 D:GLN376 2.2 42.8 1.0 O3G D:ATP602 2.2 39.8 1.0 OG D:SER331 2.3 37.0 1.0 CD D:GLN376 3.1 42.8 1.0 PG D:ATP602 3.4 39.8 1.0 CB D:SER331 3.4 37.0 1.0 PB D:ATP602 3.5 39.8 1.0 NE2 D:GLN376 3.5 42.8 1.0 O3B D:ATP602 3.8 39.8 1.0 O1G D:ATP602 3.8 39.8 1.0 O1A D:ATP602 4.1 39.8 1.0 CG D:GLN376 4.3 42.8 1.0 OD1 D:ASP456 4.5 45.1 1.0 O3A D:ATP602 4.5 39.8 1.0 N D:SER331 4.5 37.0 1.0 NE2 D:GLN457 4.5 46.6 1.0 CA D:SER331 4.5 37.0 1.0 O1B D:ATP602 4.6 39.8 1.0 OD2 D:ASP456 4.6 45.1 1.0 N D:GLY156 4.7 36.8 1.0 O2G D:ATP602 4.7 39.8 1.0 CB D:GLN376 4.7 42.8 1.0 PA D:ATP602 4.8 39.8 1.0 OG D:SER155 4.8 37.4 1.0 CG D:ASP456 5.0 45.1 1.0 CA D:GLY156 5.0 36.8 1.0

T.Hu, B.Zhang, Z.Rao. Cryo-Em Structure of the Atp-Bound Dppabcd Complex To Be Published.