Zinc in PDB 8pki: Cryo-Em Structure of NR5A2-Nucleosome Complex Shl+5.5

The binding sites of Zinc atom in the Cryo-Em Structure of NR5A2-Nucleosome Complex Shl+5.5 (pdb code 8pki). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Cryo-Em Structure of NR5A2-Nucleosome Complex Shl+5.5, PDB code: 8pki:

Zinc binding site 1 out of 1 in the Cryo-Em Structure of NR5A2-Nucleosome Complex Shl+5.5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of NR5A2-Nucleosome Complex Shl+5.5 within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn201 b:205.2 occ:1.00 SG K:CYS89 2.3 192.2 1.0 SG K:CYS106 2.3 167.8 1.0 SG K:CYS103 2.3 165.0 1.0 SG K:CYS86 2.3 189.8 1.0 CB K:CYS86 3.3 189.6 1.0 CB K:CYS106 3.3 165.2 1.0 CB K:CYS103 3.6 165.9 1.0 CB K:CYS89 3.7 190.1 1.0 OG K:SER105 3.7 165.4 1.0 N K:CYS89 3.9 190.1 1.0 N K:CYS103 4.1 167.7 1.0 N K:CYS106 4.1 165.4 1.0 CB K:VAL88 4.3 186.7 1.0 CA K:CYS106 4.3 163.9 1.0 CA K:CYS89 4.4 190.2 1.0 CA K:CYS103 4.4 166.7 1.0 CA K:CYS86 4.7 189.6 1.0 C K:VAL88 4.7 187.3 1.0 N K:GLY90 4.8 188.7 1.0 CA K:VAL88 4.9 186.9 1.0 O K:CYS86 4.9 189.7 1.0 N K:VAL88 4.9 187.2 1.0 C K:CYS86 4.9 189.5 1.0 CB K:ASP91 5.0 187.7 1.0 C K:CYS103 5.0 166.3 1.0

W.Kobayashi, A.Sappler, D.Bollschweiler, M.Kummecke, J.Basquin, E.Arslantas, S.Ruangroengkulrith, R.Hornberger, K.Duderstadt, K.Tachibana. Nucleosome-Bound NR5A2 Structure Reveals Pioneer Factor Mechanism By Dna Minor Groove Anchor Competition Nat.Struct.Mol.Biol. 2024.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-024-01239-0