Magnesium in PDB 7r78: Cryo-Em Structure of DNMT5 Quaternary Complex with Hemimethylated Dna, Amp-Pnp and Sah

The structure of Cryo-Em Structure of DNMT5 Quaternary Complex with Hemimethylated Dna, Amp-Pnp and Sah also contains other interesting chemical elements:

Zinc

(Zn)

5 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of DNMT5 Quaternary Complex with Hemimethylated Dna, Amp-Pnp and Sah (pdb code 7r78). 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 DNMT5 Quaternary Complex with Hemimethylated Dna, Amp-Pnp and Sah, PDB code: 7r78:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of DNMT5 Quaternary Complex with Hemimethylated Dna, Amp-Pnp and Sah


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 DNMT5 Quaternary Complex with Hemimethylated Dna, Amp-Pnp and Sah within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2408 b:33.8 occ:1.00 O2B A:ANP2407 2.0 40.1 1.0 N3B A:ANP2407 2.5 40.1 1.0 PB A:ANP2407 2.6 40.1 1.0 OE1 A:GLU1726 2.9 25.9 1.0 O1B A:ANP2407 3.6 40.1 1.0 PG A:ANP2407 3.8 40.1 1.0 O3A A:ANP2407 3.9 40.1 1.0 O2G A:ANP2407 3.9 40.1 1.0 CD A:GLU1726 4.1 25.9 1.0 OD1 A:ASP1725 4.1 23.1 1.0 OG1 A:THR1470 4.5 36.4 1.0 OD2 A:ASP1725 4.6 23.1 1.0 O1G A:ANP2407 4.6 40.1 1.0 OE2 A:GLU1726 4.7 25.9 1.0 CE A:LYS1469 4.7 33.2 1.0 CG A:ASP1725 4.8 23.1 1.0 O1A A:ANP2407 4.9 40.1 1.0 O3G A:ANP2407 4.9 40.1 1.0

J.Wang, S.Catania, C.Wang, M.J.De La Cruz, B.Rao, H.D.Madhani, D.J.Patel. Structural Insights Into DNMT5-Mediated Atp-Dependent High-Fidelity Epigenome Maintenance. Mol.Cell V. 82 1186 2022.
ISSN: ISSN 1097-2765
PubMed: 35202575
DOI: 10.1016/J.MOLCEL.2022.01.028