Magnesium in PDB 7yzo: Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna

The structure of Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna also contains other interesting chemical elements:

Manganese

(Mn)

4 atoms

The binding sites of Magnesium atom in the Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna (pdb code 7yzo). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna, PDB code: 7yzo:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1102 b:45.6 occ:1.00 O3B C:ADP1101 1.8 58.1 1.0 OE1 C:GLN155 2.0 51.7 1.0 OG1 C:THR44 2.4 37.1 1.0 CD C:GLN155 3.0 51.7 1.0 PB C:ADP1101 3.1 58.1 1.0 NE2 C:GLN155 3.5 51.7 1.0 O1B C:ADP1101 3.5 58.1 1.0 OE1 C:GLU984 3.6 53.6 1.0 CB C:THR44 3.7 37.1 1.0 OD2 C:ASP983 3.8 47.4 1.0 O2B C:ADP1101 4.0 58.1 1.0 N D:GLY953 4.1 45.6 1.0 OE2 C:GLU984 4.2 53.6 1.0 CD C:GLU984 4.2 53.6 1.0 CG C:GLN155 4.2 51.7 1.0 OG D:SER952 4.2 46.9 1.0 CG2 C:THR44 4.2 37.1 1.0 O3A C:ADP1101 4.2 58.1 1.0 OD1 C:ASP983 4.2 47.4 1.0 O2A C:ADP1101 4.3 58.1 1.0 CB C:GLN155 4.4 51.7 1.0 CG C:ASP983 4.4 47.4 1.0 CA D:GLY953 4.6 45.6 1.0 PA C:ADP1101 4.7 58.1 1.0 CA C:THR44 4.8 37.1 1.0 N C:THR44 4.9 37.1 1.0

Magnesium binding site 2 out of 2 in the Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Endonuclease State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1102 b:41.4 occ:1.00 OG1 D:THR44 2.1 37.2 1.0 O1B D:ADP1101 2.1 47.9 1.0 OE1 D:GLN155 2.2 61.6 1.0 NE2 D:GLN155 2.3 61.6 1.0 CD D:GLN155 2.6 61.6 1.0 CB D:THR44 3.3 37.2 1.0 PB D:ADP1101 3.3 47.9 1.0 OD1 D:ASP983 3.5 54.2 1.0 O2B D:ADP1101 3.5 47.9 1.0 CG2 D:THR44 3.7 37.2 1.0 CG D:GLN155 4.0 61.6 1.0 N C:GLY953 4.2 40.4 1.0 O1A D:ADP1101 4.3 47.9 1.0 O3B D:ADP1101 4.3 47.9 1.0 O3A D:ADP1101 4.4 47.9 1.0 CG D:ASP983 4.5 54.2 1.0 CA D:THR44 4.5 37.2 1.0 CA C:GLY953 4.6 40.4 1.0 N D:THR44 4.7 37.2 1.0 OD2 D:ASP983 4.7 54.2 1.0 OG C:SER952 4.7 39.3 1.0 CB D:GLN155 4.7 61.6 1.0 PA D:ADP1101 4.8 47.9 1.0

F.Gut, L.Kashammer, K.Lammens, J.D.Bartho, A.M.Boggusch, E.Van De Logt, B.Kessler, K.P.Hopfner. Structural Mechanism of Endonucleolytic Processing of Blocked Dna Ends and Hairpins By MRE11-RAD50. Mol.Cell V. 82 3513 2022.
ISSN: ISSN 1097-2765
PubMed: 35987200
DOI: 10.1016/J.MOLCEL.2022.07.019