Magnesium in PDB 8v4y: Cryo-Em Structure of Singly-Bound SNF2H-Nucleosome Complex with SNF2H at Inactive SHL2 (Conformation 1)

The structure of Cryo-Em Structure of Singly-Bound SNF2H-Nucleosome Complex with SNF2H at Inactive SHL2 (Conformation 1) also contains other interesting chemical elements:

Fluorine

(F)

3 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of Singly-Bound SNF2H-Nucleosome Complex with SNF2H at Inactive SHL2 (Conformation 1) (pdb code 8v4y). 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 Singly-Bound SNF2H-Nucleosome Complex with SNF2H at Inactive SHL2 (Conformation 1), PDB code: 8v4y:

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of Singly-Bound SNF2H-Nucleosome Complex with SNF2H at Inactive SHL2 (Conformation 1)


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 Singly-Bound SNF2H-Nucleosome Complex with SNF2H at Inactive SHL2 (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ W:Mg1102 b:25.8 occ:1.00 F3 W:BEF1103 2.9 29.5 1.0 O2B W:ADP1101 3.0 31.6 1.0 HG1 W:THR212 3.2 100.0 1.0 OD2 W:ASP308 3.3 100.0 1.0 OG1 W:THR212 3.5 100.0 1.0 HE1 W:TRP244 3.7 100.0 1.0 HA2 W:GLY565 3.9 100.0 1.0 OE2 W:GLU309 4.1 100.0 1.0 CG W:ASP308 4.2 100.0 1.0 NE1 W:TRP244 4.3 100.0 1.0 OD1 W:ASP308 4.3 100.0 1.0 PB W:ADP1101 4.4 25.1 1.0 BE W:BEF1103 4.5 32.3 1.0 HZ2 W:TRP244 4.5 100.0 1.0 HD22 W:ASN243 4.5 100.0 1.0 HA3 W:GLY565 4.6 100.0 1.0 CA W:GLY565 4.7 100.0 1.0 O W:GLY565 4.7 100.0 1.0 HG21 W:THR240 4.8 100.0 1.0 CE2 W:TRP244 4.9 100.0 1.0 CB W:THR212 4.9 100.0 1.0 O2A W:ADP1101 4.9 17.6 1.0 HB W:THR240 4.9 100.0 1.0 CZ2 W:TRP244 5.0 100.0 1.0

U.S.Chio, E.Palovcak, A.A.A.Smith, H.Autzen, E.N.Munoz, Z.Yu, F.Wang, D.A.Agard, J.P.Armache, G.J.Narlikar, Y.Cheng. Functionalized Graphene-Oxide Grids Enable High-Resolution Cryo-Em Structures of the SNF2H-Nucleosome Complex Without Crosslinking. Nat Commun V. 15 2225 2024.
ISSN: ESSN 2041-1723
PubMed: 38472177
DOI: 10.1038/S41467-024-46178-Y