Magnesium in PDB 9bi4: Cryo Em Structure of Dsdna Bound MRE11-RAD50 Complex

The structure of Cryo Em Structure of Dsdna Bound MRE11-RAD50 Complex also contains other interesting chemical elements:

Manganese

(Mn)

4 atoms

The binding sites of Magnesium atom in the Cryo Em Structure of Dsdna Bound MRE11-RAD50 Complex (pdb code 9bi4). 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 Dsdna Bound MRE11-RAD50 Complex, PDB code: 9bi4:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo Em Structure of Dsdna Bound MRE11-RAD50 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 Dsdna Bound MRE11-RAD50 Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1402 b:52.9 occ:1.00 OG1 C:THR41 1.9 15.0 1.0 OE1 C:GLN158 2.0 2.1 1.0 O2G C:ATP1401 2.2 4.6 1.0 O2B C:ATP1401 2.3 4.6 1.0 CD C:GLN158 3.2 2.1 1.0 CB C:THR41 3.2 15.0 1.0 PB C:ATP1401 3.5 4.6 1.0 PG C:ATP1401 3.6 4.6 1.0 NE2 C:GLN158 3.9 2.1 1.0 O3B C:ATP1401 4.0 4.6 1.0 CG2 C:THR41 4.0 15.0 1.0 OD1 C:ASP1234 4.0 3.8 1.0 N C:THR41 4.2 15.0 1.0 OD2 C:ASP1234 4.2 3.8 1.0 CA C:THR41 4.2 15.0 1.0 O1B C:ATP1401 4.2 4.6 1.0 CG C:GLN158 4.3 2.1 1.0 O1G C:ATP1401 4.3 4.6 1.0 CB C:GLN158 4.4 2.1 1.0 CG C:ASP1234 4.5 3.8 1.0 CB D:ALA1206 4.6 5.1 1.0 O3G C:ATP1401 4.7 4.6 1.0 O3A C:ATP1401 4.7 4.6 1.0 N D:ALA1206 4.8 5.1 1.0 O2A C:ATP1401 4.9 4.6 1.0

Magnesium binding site 2 out of 2 in the Cryo Em Structure of Dsdna Bound MRE11-RAD50 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 Dsdna Bound MRE11-RAD50 Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1402 b:43.9 occ:1.00 O2B D:ATP1401 1.8 6.6 1.0 OG1 D:THR41 1.9 15.0 1.0 O2G D:ATP1401 2.2 6.6 1.0 OE1 D:GLN158 2.9 2.1 1.0 CB D:THR41 3.1 15.0 1.0 PB D:ATP1401 3.1 6.6 1.0 PG D:ATP1401 3.5 6.6 1.0 O3B D:ATP1401 3.6 6.6 1.0 O1A D:ATP1401 3.9 6.6 1.0 N D:THR41 4.0 15.0 1.0 CG2 D:THR41 4.0 15.0 1.0 CD D:GLN158 4.1 2.1 1.0 O1B D:ATP1401 4.1 6.6 1.0 CA D:THR41 4.1 15.0 1.0 O3A D:ATP1401 4.2 6.6 1.0 O3G D:ATP1401 4.3 6.6 1.0 OD2 D:ASP1234 4.4 3.8 1.0 OD1 D:ASP1234 4.5 3.8 1.0 O1G D:ATP1401 4.5 6.6 1.0 PA D:ATP1401 4.6 6.6 1.0 NE2 D:GLN158 4.8 2.1 1.0 N C:ALA1206 4.8 5.1 1.0 CG D:ASP1234 4.9 3.8 1.0 CB C:ALA1206 4.9 5.1 1.0 CB C:SER1205 4.9 15.0 1.0

J.Petrini, M.Hohl, Y.Yu, V.Kuryavyi, D.Patel. Structure Guided Functional Analysis of the S. Cerevisiae MRE11 Complex. Res Sq 2024.
ISSN: ESSN 2693-5015
PubMed: 39711558
DOI: 10.21203/RS.3.RS-5390974/V1