Zinc in PDB 8upf: Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C

All present enzymatic activity of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C:
2.3.2.23; 2.3.2.24; 2.3.2.27;

The binding sites of Zinc atom in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C (pdb code 8upf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C, PDB code: 8upf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C


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 the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn301 b:202.1 occ:1.00 CE1 K:HIS33 2.3 191.6 1.0 SG K:CYS31 2.4 186.0 1.0 ND1 K:HIS33 2.4 191.6 1.0 SG K:CYS54 2.4 191.0 1.0 SG K:CYS51 2.4 186.4 1.0 CB K:CYS31 2.7 186.0 1.0 CB K:CYS51 2.8 186.4 1.0 CB K:CYS54 3.4 191.0 1.0 N K:CYS54 3.6 191.0 1.0 NE2 K:HIS33 3.6 191.6 1.0 CG K:HIS33 3.7 191.6 1.0 CB K:ARG56 3.8 168.4 1.0 CA K:CYS54 3.9 191.0 1.0 CA K:CYS31 4.2 186.0 1.0 C K:CYS54 4.3 191.0 1.0 CD2 K:HIS33 4.3 191.6 1.0 O K:CYS31 4.3 186.0 1.0 CA K:CYS51 4.3 186.4 1.0 N K:ARG56 4.5 168.4 1.0 N K:ARG55 4.5 187.5 1.0 CB K:PHE53 4.5 195.2 1.0 C K:CYS31 4.6 186.0 1.0 CD K:ARG56 4.7 168.4 1.0 CB K:HIS33 4.7 191.6 1.0 C K:PHE53 4.7 195.2 1.0 CA K:ARG56 4.7 168.4 1.0 CG K:ARG56 4.9 168.4 1.0 N K:CYS31 4.9 186.0 1.0 O K:CYS54 4.9 191.0 1.0 N K:PHE53 4.9 195.2 1.0 CA K:PHE53 5.0 195.2 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn302 b:245.6 occ:1.00 SG K:CYS36 2.4 213.1 1.0 SG K:CYS39 2.5 206.2 1.0 SG K:CYS19 2.5 237.2 1.0 SG K:CYS16 2.5 233.5 1.0 CB K:CYS16 2.8 233.5 1.0 CB K:CYS39 3.2 206.2 1.0 CB K:CYS36 3.4 213.1 1.0 CB K:CYS19 3.6 237.2 1.0 N K:CYS36 3.9 213.1 1.0 N K:CYS19 4.1 237.2 1.0 CA K:CYS36 4.2 213.1 1.0 CA K:CYS16 4.3 233.5 1.0 CA K:CYS19 4.4 237.2 1.0 CA K:CYS39 4.5 206.2 1.0 N K:CYS39 4.6 206.2 1.0 O K:GLU21 4.7 238.8 1.0 O K:CYS36 4.8 213.1 1.0 NH2 K:ARG91 4.8 239.2 1.0 C K:CYS36 4.9 213.1 1.0 C K:CYS16 4.9 233.5 1.0 NH1 K:ARG91 4.9 239.2 1.0 C K:CYS19 5.0 237.2 1.0

Q.Hu, M.V.Botuyan, D.Zhao, G.Cui, G.Mer. Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168-UBCH5C To Be Published.