Magnesium in PDB 7ej6: Yeast DMC1 Presynaptic Complex

The binding sites of Magnesium atom in the Yeast DMC1 Presynaptic Complex (pdb code 7ej6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Yeast DMC1 Presynaptic Complex, PDB code: 7ej6:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Yeast DMC1 Presynaptic Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Yeast DMC1 Presynaptic Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:64.0 occ:1.00 O3B C:ATP401 2.0 79.5 1.0 O2B C:ATP401 2.3 79.5 1.0 CG2 B:THR128 2.5 68.6 1.0 PB C:ATP401 2.7 79.5 1.0 OE2 B:GLU157 2.8 76.2 1.0 CB B:THR128 3.0 68.6 1.0 PG C:ATP401 3.3 79.5 1.0 O2G C:ATP401 3.4 79.5 1.0 OG1 B:THR128 3.7 68.6 1.0 O3A C:ATP401 3.8 79.5 1.0 O1B C:ATP401 3.8 79.5 1.0 CD B:GLU157 3.9 76.2 1.0 O1G C:ATP401 3.9 79.5 1.0 CA B:THR128 4.3 68.6 1.0 OE1 B:GLU157 4.3 76.2 1.0 O3G C:ATP401 4.4 79.5 1.0 N B:THR128 4.4 68.6 1.0 OG1 B:THR159 4.6 78.8 1.0 O1A C:ATP401 4.8 79.5 1.0 PA C:ATP401 4.8 79.5 1.0 OD2 B:ASP216 4.9 69.2 1.0

Magnesium binding site 2 out of 3 in the Yeast DMC1 Presynaptic Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Yeast DMC1 Presynaptic Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg403 b:71.0 occ:1.00 O3B C:ATP402 2.0 81.7 1.0 O2B C:ATP402 2.3 81.7 1.0 PB C:ATP402 2.7 81.7 1.0 OE2 C:GLU157 2.8 79.6 1.0 PG C:ATP402 3.3 81.7 1.0 O2G C:ATP402 3.4 81.7 1.0 CG2 C:THR128 3.5 73.6 1.0 CB C:THR128 3.5 73.6 1.0 O3A C:ATP402 3.8 81.7 1.0 O1B C:ATP402 3.8 81.7 1.0 CD C:GLU157 3.9 79.6 1.0 O1G C:ATP402 3.9 81.7 1.0 OE1 C:GLU157 4.3 79.6 1.0 OD1 C:ASP216 4.3 71.9 1.0 O3G C:ATP402 4.4 81.7 1.0 N C:THR128 4.4 73.6 1.0 OG1 C:THR128 4.4 73.6 1.0 CA C:THR128 4.5 73.6 1.0 OG1 C:THR159 4.6 80.8 1.0 O1A C:ATP402 4.8 81.7 1.0 PA C:ATP402 4.8 81.7 1.0

Magnesium binding site 3 out of 3 in the Yeast DMC1 Presynaptic Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Yeast DMC1 Presynaptic Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:66.8 occ:1.00 O3B B:ATP602 2.0 78.9 1.0 O2B B:ATP602 2.3 78.9 1.0 OG1 A:THR128 2.6 70.6 1.0 PB B:ATP602 2.7 78.9 1.0 OE2 A:GLU157 2.8 75.7 1.0 PG B:ATP602 3.3 78.9 1.0 O2G B:ATP602 3.4 78.9 1.0 CB A:THR128 3.5 70.6 1.0 O3A B:ATP602 3.8 78.9 1.0 O1B B:ATP602 3.8 78.9 1.0 CD A:GLU157 3.9 75.7 1.0 O1G B:ATP602 3.9 78.9 1.0 OE1 A:GLU157 4.3 75.7 1.0 O3G B:ATP602 4.4 78.9 1.0 N A:THR128 4.4 70.6 1.0 CG2 A:THR128 4.5 70.6 1.0 CA A:THR128 4.6 70.6 1.0 OG1 A:THR159 4.6 78.7 1.0 O1A B:ATP602 4.8 78.9 1.0 OD2 A:ASP216 4.8 71.4 1.0 PA B:ATP602 4.8 78.9 1.0 CE A:LYS127 4.9 66.5 1.0

J.Xu, L.Zhao, S.Peng, H.Chu, R.Liang, M.Tian, P.P.Connell, G.Li, C.Chen, H.W.Wang. Mechanisms of Distinctive Mismatch Tolerance Between RAD51 and DMC1 in Homologous Recombination. Nucleic Acids Res. V. 49 13135 2021.
ISSN: ESSN 1362-4962
PubMed: 34871438
DOI: 10.1093/NAR/GKAB1141