Magnesium in PDB 6ppu: Cryo-Em Structure of Adnab-Amppnp-Dna Complex

All present enzymatic activity of Cryo-Em Structure of Adnab-Amppnp-Dna Complex:
3.6.4.12;

The structure of Cryo-Em Structure of Adnab-Amppnp-Dna Complex also contains other interesting chemical elements:

Iron

(Fe)

4 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of Adnab-Amppnp-Dna Complex (pdb code 6ppu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Cryo-Em Structure of Adnab-Amppnp-Dna Complex, PDB code: 6ppu:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of Adnab-Amppnp-Dna 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 Adnab-Amppnp-Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1101 b:20.0 occ:1.00 NE2 A:HIS833 2.7 13.3 1.0 O A:LEU935 2.9 15.1 1.0 OD1 A:ASP934 3.2 30.0 1.0 OD1 A:ASP920 3.2 20.2 1.0 CD2 A:HIS833 3.4 13.3 1.0 CG A:ASP920 3.7 20.2 1.0 CE1 A:HIS833 3.7 13.3 1.0 C A:LEU935 3.9 15.1 1.0 OD2 A:ASP920 4.1 20.2 1.0 N A:LEU935 4.3 15.1 1.0 CG A:ASP934 4.3 30.0 1.0 CB A:ASP920 4.5 20.2 1.0 C A:ASP934 4.5 15.8 1.0 CG A:HIS833 4.6 13.3 1.0 CA A:LEU935 4.6 15.1 1.0 ND1 A:HIS833 4.7 13.3 1.0 N A:LYS936 4.7 15.4 1.0 O A:ASP934 4.8 15.8 1.0 CA A:ASP934 4.9 15.8 1.0 CB A:LEU935 4.9 15.1 1.0 CA A:LYS936 5.0 15.4 1.0

N.Jia, M.C.Unciuleac, C.Xue, E.C.Greene, D.J.Patel, S.Shuman. Structures and Single-Molecule Analysis of Bacterial Motor Nuclease Adnab Illuminate the Mechanism of Dna Double-Strand Break Resection. Proc.Natl.Acad.Sci.Usa 2019.
ISSN: ESSN 1091-6490
PubMed: 31740608
DOI: 10.1073/PNAS.1913546116