Zinc in PDB 8sn6: Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4)

All present enzymatic activity of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4):
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 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4) (pdb code 8sn6). 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 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4), PDB code: 8sn6:
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 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4)


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 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4) within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn301 b:164.2 occ:1.00 ND1 K:HIS33 2.1 89.9 1.0 SG K:CYS31 2.3 88.4 1.0 SG K:CYS51 2.3 91.7 1.0 SG K:CYS54 2.3 96.6 1.0 CE1 K:HIS33 2.6 89.9 1.0 CB K:CYS31 2.9 88.4 1.0 CG K:HIS33 3.1 89.9 1.0 CB K:CYS54 3.2 96.6 1.0 CB K:CYS51 3.4 91.7 1.0 NE2 K:HIS33 3.6 89.9 1.0 CB K:HIS33 3.8 89.9 1.0 N K:CYS54 3.8 96.6 1.0 CD2 K:HIS33 3.8 89.9 1.0 O K:CYS31 4.0 88.4 1.0 CA K:CYS54 4.1 96.6 1.0 CA K:CYS31 4.3 88.4 1.0 C K:CYS31 4.4 88.4 1.0 CB K:PHE53 4.8 90.6 1.0 CA K:CYS51 4.8 91.7 1.0 C K:PHE53 4.9 90.6 1.0 CD1 K:LEU29 4.9 90.7 1.0 CD2 K:PHE53 5.0 90.6 1.0 N K:HIS33 5.0 89.9 1.0 CA K:HIS33 5.0 89.9 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4)


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 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4) within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn302 b:165.9 occ:1.00 SG K:CYS19 2.3 100.5 1.0 SG K:CYS36 2.3 94.6 1.0 SG K:CYS39 2.3 91.6 1.0 SG K:CYS16 2.3 104.9 1.0 CB K:CYS19 3.5 100.5 1.0 CB K:CYS16 3.5 104.9 1.0 CB K:CYS39 3.6 91.6 1.0 CB K:CYS36 3.7 94.6 1.0 N K:CYS19 3.9 100.5 1.0 N K:CYS36 4.2 94.6 1.0 CA K:CYS19 4.3 100.5 1.0 CA K:CYS36 4.5 94.6 1.0 O K:CYS36 4.5 94.6 1.0 CB K:ILE18 4.5 88.3 1.0 N K:CYS39 4.6 91.6 1.0 CD1 K:LEU35 4.6 89.0 1.0 CA K:CYS39 4.7 91.6 1.0 C K:CYS36 4.8 94.6 1.0 C K:ILE18 4.9 88.3 1.0 CA K:CYS16 4.9 104.9 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 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A) (Class 4) To Be Published.