Magnesium in PDB 9cdh: MORC2 Pd Mutant with Dna

The structure of MORC2 Pd Mutant with Dna also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the MORC2 Pd Mutant with Dna (pdb code 9cdh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the MORC2 Pd Mutant with Dna, PDB code: 9cdh:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the MORC2 Pd Mutant with Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of MORC2 Pd Mutant with Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1103 b:21.4 occ:1.00 O3G A:ANP1102 1.8 29.6 1.0 OD1 A:ASN39 1.9 22.6 1.0 O1A A:ANP1102 1.9 20.0 1.0 O1B A:ANP1102 2.1 18.3 1.0 HD21 A:ASN39 2.8 19.8 1.0 CG A:ASN39 2.8 18.4 1.0 ND2 A:ASN39 3.2 19.3 1.0 PA A:ANP1102 3.2 12.7 1.0 HA3 A:GLY103 3.2 19.1 1.0 PG A:ANP1102 3.2 17.3 1.0 PB A:ANP1102 3.2 12.6 1.0 HZ2 A:LYS89 3.3 27.9 1.0 O3A A:ANP1102 3.5 20.5 1.0 H A:LEU104 3.6 19.2 1.0 N3B A:ANP1102 3.6 17.1 1.0 H A:GLY103 3.6 18.8 1.0 CA A:GLY103 4.0 16.1 1.0 HA3 A:GLY98 4.0 30.8 1.0 NZ A:LYS89 4.0 29.4 1.0 HD22 A:ASN39 4.0 19.2 1.0 O1G A:ANP1102 4.0 26.1 1.0 O A:GLU35 4.0 24.2 1.0 O5' A:ANP1102 4.1 18.3 1.0 N A:LEU104 4.1 19.6 1.0 HA2 A:GLY98 4.1 29.0 1.0 HA A:ASN39 4.1 18.6 1.0 OE1 A:GLU35 4.1 30.5 1.0 HZ1 A:LYS89 4.1 26.2 1.0 HZ3 A:LYS89 4.1 27.1 1.0 N A:GLY103 4.2 19.1 1.0 CB A:ASN39 4.2 17.5 1.0 HNB1 A:ANP1102 4.2 21.1 1.0 O2G A:ANP1102 4.3 22.9 1.0 O2A A:ANP1102 4.4 23.7 1.0 H A:ASN39 4.4 18.4 1.0 C A:GLY103 4.4 17.4 1.0 HB2 A:ASP38 4.5 23.5 1.0 CA A:ASN39 4.5 17.2 1.0 CA A:GLY98 4.5 27.4 1.0 H3' A:ANP1102 4.5 19.9 1.0 HZ2 A:LYS427 4.5 28.6 1.0 HB3 A:GLU35 4.5 23.6 1.0 N A:ASN39 4.5 15.9 1.0 HB2 A:LEU104 4.6 19.6 1.0 O2B A:ANP1102 4.6 22.1 1.0 HB3 A:ASN39 4.7 18.2 1.0 HB2 A:ASN39 4.7 18.4 1.0 HA2 A:GLY103 4.8 17.2 1.0 HA A:GLU35 4.8 22.5 1.0 C A:GLU35 4.9 19.0 1.0

Magnesium binding site 2 out of 2 in the MORC2 Pd Mutant with Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of MORC2 Pd Mutant with Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1103 b:20.6 occ:1.00 O2G B:ANP1102 1.9 34.4 1.0 OD1 B:ASN39 1.9 21.8 1.0 O1A B:ANP1102 1.9 21.6 1.0 O1B B:ANP1102 2.2 19.8 1.0 CG B:ASN39 2.8 17.9 1.0 HD21 B:ASN39 2.9 20.1 1.0 PA B:ANP1102 3.2 13.6 1.0 PG B:ANP1102 3.2 19.1 1.0 PB B:ANP1102 3.2 12.2 1.0 HA3 B:GLY103 3.2 19.2 1.0 ND2 B:ASN39 3.2 19.8 1.0 HZ2 B:LYS89 3.3 29.5 1.0 N3B B:ANP1102 3.5 17.4 1.0 O3A B:ANP1102 3.5 20.0 1.0 H B:LEU104 3.6 19.1 1.0 H B:GLY103 3.6 17.9 1.0 HA3 B:GLY98 3.9 31.7 1.0 CA B:GLY103 4.0 15.8 1.0 O1G B:ANP1102 4.0 27.0 1.0 NZ B:LYS89 4.0 30.4 1.0 HA2 B:GLY98 4.0 29.6 1.0 O5' B:ANP1102 4.0 17.0 1.0 HZ1 B:LYS89 4.1 26.8 1.0 HD22 B:ASN39 4.1 19.4 1.0 O B:GLU35 4.1 24.3 1.0 N B:LEU104 4.1 19.3 1.0 HA B:ASN39 4.1 18.1 1.0 OE1 B:GLU35 4.2 32.6 1.0 N B:GLY103 4.2 17.9 1.0 HZ3 B:LYS89 4.2 28.2 1.0 CB B:ASN39 4.2 17.9 1.0 O3G B:ANP1102 4.3 23.1 1.0 O2A B:ANP1102 4.4 24.6 1.0 HNB1 B:ANP1102 4.4 21.2 1.0 CA B:GLY98 4.4 28.5 1.0 HB2 B:ASP38 4.4 22.9 1.0 H B:ASN39 4.4 17.6 1.0 C B:GLY103 4.4 17.1 1.0 HZ2 B:LYS427 4.4 27.4 1.0 H3' B:ANP1102 4.5 19.5 1.0 CA B:ASN39 4.5 16.9 1.0 HB3 B:GLU35 4.5 22.9 1.0 N B:ASN39 4.6 14.7 1.0 O2B B:ANP1102 4.6 21.9 1.0 HB2 B:LEU104 4.7 20.1 1.0 HB3 B:ASN39 4.7 18.9 1.0 HB2 B:ASN39 4.8 18.2 1.0 HA2 B:GLY103 4.8 17.0 1.0 HA B:GLU35 4.8 22.7 1.0 C B:GLU35 4.9 18.5 1.0 OD2 B:ASP42 5.0 32.2 1.0

W.Tan, J.Park, H.Venugopal, J.Lou, P.S.Dias, P.L.Baldoni, K.W.Moon, T.A.Dite, C.R.Keenan, A.D.Gurzau, J.Lee, T.M.Johanson, A.Leis, J.Yousef, V.Vaibhav, L.F.Dagley, C.S.Ang, L.D.Corso, C.Davidovich, S.J.Vervoort, G.K.Smyth, M.E.Blewitt, R.S.Allan, E.Hinde, S.D'arcy, J.K.Ryu, S.Shakeel. MORC2 Is A Phosphorylation-Dependent Dna Compaction Machine. Nat Commun V. 16 5606 2025.
ISSN: ESSN 2041-1723
PubMed: 40593625
DOI: 10.1038/S41467-025-60751-Z