Zinc in PDB 8sn1: Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with RNF168 and UBCH5C~Ub (UBCH5C Chemically Conjugated to Histone H2A. No Density For Ub.) (Class 6)

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. No Density For Ub.) (Class 6)

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. No Density For Ub.) (Class 6):
2.3.2.23; 2.3.2.24; 2.3.2.27;

Zinc Binding Sites:

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. No Density For Ub.) (Class 6) (pdb code 8sn1). 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. No Density For Ub.) (Class 6), PDB code: 8sn1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8sn1

Go back to Zinc Binding Sites List in 8sn1
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. No Density For Ub.) (Class 6)


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. No Density For Ub.) (Class 6) within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Zn301

b:87.7
occ:1.00
ND1 K:HIS33 2.1 70.6 1.0
SG K:CYS31 2.3 71.5 1.0
SG K:CYS54 2.3 65.2 1.0
SG K:CYS51 2.3 58.7 1.0
CE1 K:HIS33 2.8 70.6 1.0
CG K:HIS33 3.2 70.6 1.0
CB K:CYS51 3.3 58.7 1.0
CB K:CYS54 3.3 65.2 1.0
CB K:CYS31 3.3 71.5 1.0
N K:CYS54 3.6 65.2 1.0
CB K:HIS33 3.7 70.6 1.0
CA K:CYS54 4.0 65.2 1.0
NE2 K:HIS33 4.0 70.6 1.0
CD2 K:HIS33 4.2 70.6 1.0
C K:CYS54 4.5 65.2 1.0
CD1 K:LEU29 4.6 64.7 1.0
CB K:PHE53 4.6 63.2 1.0
CA K:CYS31 4.7 71.5 1.0
N K:ARG55 4.7 62.8 1.0
C K:PHE53 4.7 63.2 1.0
CA K:CYS51 4.7 58.7 1.0
N K:HIS33 4.9 70.6 1.0
CA K:HIS33 4.9 70.6 1.0
CB K:ARG56 5.0 51.7 1.0
C K:CYS31 5.0 71.5 1.0
N K:PHE53 5.0 63.2 1.0

Zinc binding site 2 out of 2 in 8sn1

Go back to Zinc Binding Sites List in 8sn1
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. No Density For Ub.) (Class 6)


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. No Density For Ub.) (Class 6) within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Zn302

b:111.6
occ:1.00
SG K:CYS36 2.3 71.9 1.0
SG K:CYS39 2.3 70.4 1.0
SG K:CYS19 2.3 79.0 1.0
SG K:CYS16 2.3 77.7 1.0
CB K:CYS19 2.7 79.0 1.0
N K:CYS19 3.3 79.0 1.0
CA K:CYS19 3.6 79.0 1.0
CB K:CYS16 3.6 77.7 1.0
CB K:CYS39 3.9 70.4 1.0
CB K:CYS36 4.0 71.9 1.0
C K:ILE18 4.4 72.0 1.0
CB K:ILE18 4.4 72.0 1.0
N K:CYS39 4.7 70.4 1.0
N K:CYS36 4.7 71.9 1.0
CA K:CYS39 4.8 70.4 1.0
C K:CYS19 4.8 79.0 1.0
CA K:CYS36 4.8 71.9 1.0
CA K:ILE18 4.8 72.0 1.0
O K:CYS36 4.9 71.9 1.0
N K:ILE18 4.9 72.0 1.0
CA K:CYS16 5.0 77.7 1.0

Reference:

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. No Density For Ub.) (Class 6) To Be Published.
Page generated: Thu Oct 31 11:04:13 2024

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