Magnesium in PDB 9jw1: Cryo-Em Structure of Human RNF213

The binding sites of Magnesium atom in the Cryo-Em Structure of Human RNF213 (pdb code 9jw1). 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 Human RNF213, PDB code: 9jw1:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of Human RNF213


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 Human RNF213 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5302 b:30.0 occ:1.00 OE2 A:GLU2098 2.6 49.6 1.0 O1B A:ATP5301 2.6 58.3 1.0 O2G A:ATP5301 2.8 71.7 1.0 OG A:SER1999 3.4 43.8 1.0 CB A:SER1999 3.5 45.1 1.0 CD A:GLU2098 3.5 51.3 1.0 OD2 A:ASP2057 3.7 50.6 1.0 OE1 A:GLU2098 3.8 47.9 1.0 O3G A:ATP5301 3.8 44.0 1.0 PG A:ATP5301 3.8 76.9 1.0 OD2 A:ASP2504 3.9 45.4 1.0 PB A:ATP5301 4.0 56.3 1.0 O3B A:ATP5301 4.5 58.2 1.0 O1A A:ATP5301 4.5 46.6 1.0 NH2 A:ARG2024 4.5 34.7 1.0 CG A:ASP2057 4.6 42.9 1.0 CG A:ASP2504 4.6 48.8 1.0 OD1 A:ASP2504 4.6 55.1 1.0 CA A:SER1999 4.8 38.9 1.0 O2B A:ATP5301 4.8 47.7 1.0 N A:SER1999 4.8 40.9 1.0 CG A:GLU2098 4.9 36.5 1.0 OD1 A:ASP2057 5.0 41.6 1.0

X.Zhou, H.Zhang, Y.Wang, D.Wang, Z.Lin, Y.Zhang, Y.Tang, J.Liu, Y.F.Yao, Y.Zhang, L.Pan. Shigella Effector IPAH1.4 Subverts Host E3 Ligase RNF213 to Evade Antibacterial Immunity. Nat Commun V. 16 3099 2025.
ISSN: ESSN 2041-1723
PubMed: 40164614
DOI: 10.1038/S41467-025-58432-Y