Zinc in PDB 8uq9: Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker

Enzymatic activity of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker

All present enzymatic activity of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker:
2.3.2.23; 2.3.2.24; 2.3.2.27;

Protein crystallography data

The structure of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker, PDB code: 8uq9 was solved by Q.Hu, M.V.Botuyan, G.Mer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.18 / 2.30
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 108.135, 108.135, 114.01, 90, 90, 120
R / Rfree (%) 18.3 / 20.6

Other elements in 8uq9:

The structure of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker also contains other interesting chemical elements:

Sodium (Na) 4 atoms
Chlorine (Cl) 36 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker (pdb code 8uq9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker, PDB code: 8uq9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 8uq9

Go back to Zinc Binding Sites List in 8uq9
Zinc binding site 1 out of 4 in the Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn4010

b:32.5
occ:1.00
 ND1 A:HIS33 2.0 36.2 1.0
SG A:CYS31 2.3 28.8 1.0
SG A:CYS51 2.3 30.7 1.0
SG A:CYS54 2.3 32.8 1.0
CE1 A:HIS33 3.0 40.6 1.0
CG A:HIS33 3.0 35.1 1.0
CB A:CYS51 3.2 35.0 1.0
CB A:CYS31 3.2 34.3 1.0
CB A:HIS33 3.4 30.2 1.0
CB A:CYS54 3.4 34.3 1.0
N A:CYS54 3.7 40.1 1.0
CA A:CYS54 4.1 36.0 1.0
NE2 A:HIS33 4.1 44.7 1.0
CD2 A:HIS33 4.2 36.5 1.0
CB A:PHE53 4.4 34.0 1.0
CA A:CYS31 4.5 32.2 1.0
N A:HIS33 4.5 33.4 1.0
O A:HOH5231 4.6 48.4 1.0
CA A:HIS33 4.6 29.8 1.0
CA A:CYS51 4.6 34.0 1.0
C A:PHE53 4.7 39.9 1.0
C A:CYS31 4.7 33.2 1.0
O A:CYS31 4.7 31.4 1.0
C A:CYS54 4.8 34.8 1.0
N A:PHE53 4.9 37.6 1.0
CA A:PHE53 4.9 34.3 1.0

Zinc binding site 2 out of 4 in 8uq9

Go back to Zinc Binding Sites List in 8uq9
Zinc binding site 2 out of 4 in the Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn4011

b:31.0
occ:1.00
 SG A:CYS39 2.2 32.5 1.0
SG A:CYS19 2.3 25.0 1.0
SG A:CYS16 2.3 26.3 1.0
SG A:CYS36 2.3 25.2 1.0
CB A:CYS16 3.1 28.7 1.0
CB A:CYS39 3.2 29.2 1.0
CB A:CYS19 3.2 26.1 1.0
CB A:CYS36 3.6 27.6 1.0
N A:CYS19 3.6 30.9 1.0
OG A:SER99 3.8 48.2 1.0
CA A:CYS19 4.0 27.2 1.0
N A:CYS36 4.1 27.0 1.0
CA A:CYS39 4.3 33.8 1.0
N A:CYS39 4.4 30.9 1.0
CA A:CYS36 4.4 27.5 1.0
CB A:ILE18 4.5 29.6 1.0
NH1 A:ARG91 4.6 35.0 1.0
CA A:CYS16 4.6 27.6 1.0
C A:ILE18 4.7 31.6 1.0
O A:CYS36 4.7 27.9 1.0
NH2 A:ARG91 4.7 41.0 1.0
N A:ILE18 4.9 31.3 1.0
C A:CYS36 4.9 28.7 1.0
C A:CYS19 4.9 32.1 1.0
CA A:ILE18 4.9 31.0 1.0
C A:CYS16 5.0 28.8 1.0

Zinc binding site 3 out of 4 in 8uq9

Go back to Zinc Binding Sites List in 8uq9
Zinc binding site 3 out of 4 in the Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Zn4012

b:32.6
occ:1.00
 ND1 a:HIS33 2.0 36.5 1.0
SG a:CYS31 2.2 30.5 1.0
SG a:CYS51 2.3 31.0 1.0
SG a:CYS54 2.4 35.2 1.0
CE1 a:HIS33 2.9 38.0 1.0
CG a:HIS33 3.0 36.3 1.0
CB a:CYS51 3.2 35.5 1.0
CB a:CYS31 3.3 34.5 1.0
CB a:HIS33 3.4 30.1 1.0
CB a:CYS54 3.5 37.8 1.0
N a:CYS54 3.8 41.0 1.0
NE2 a:HIS33 4.1 45.9 1.0
CD2 a:HIS33 4.1 37.3 1.0
CA a:CYS54 4.2 37.8 1.0
CB a:PHE53 4.4 34.7 1.0
N a:HIS33 4.6 33.8 1.0
CA a:CYS31 4.6 32.2 1.0
CA a:HIS33 4.6 30.7 1.0
O a:HOH5244 4.6 49.5 1.0
CA a:CYS51 4.6 35.9 1.0
C a:CYS31 4.7 33.1 1.0
O a:CYS31 4.8 33.1 1.0
C a:PHE53 4.8 41.2 1.0
C a:CYS54 4.9 36.5 1.0
N a:PHE53 4.9 38.4 1.0
CD1 a:LEU29 5.0 28.9 1.0
CA a:PHE53 5.0 35.7 1.0
CB a:ARG56 5.0 38.6 1.0

Zinc binding site 4 out of 4 in 8uq9

Go back to Zinc Binding Sites List in 8uq9
Zinc binding site 4 out of 4 in the Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4- Residue Linker within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Zn4013

b:30.5
occ:1.00
 SG a:CYS39 2.3 31.6 1.0
SG a:CYS19 2.3 25.7 1.0
SG a:CYS16 2.3 24.7 1.0
SG a:CYS36 2.3 25.6 1.0
CB a:CYS16 3.1 29.6 1.0
CB a:CYS39 3.1 28.9 1.0
CB a:CYS19 3.3 28.5 1.0
CB a:CYS36 3.5 28.9 1.0
N a:CYS19 3.6 30.8 1.0
OG a:SER99 3.8 47.7 1.0
CA a:CYS19 4.1 28.8 1.0
N a:CYS36 4.1 26.7 1.0
CA a:CYS39 4.3 33.4 1.0
N a:CYS39 4.3 30.3 1.0
CA a:CYS36 4.3 27.7 1.0
CB a:ILE18 4.4 31.0 1.0
NH1 a:ARG91 4.5 38.4 1.0
CA a:CYS16 4.6 28.0 1.0
O a:CYS36 4.7 28.2 1.0
C a:ILE18 4.7 31.4 1.0
NH2 a:ARG91 4.7 45.1 1.0
N a:ILE18 4.9 30.0 1.0
C a:CYS36 4.9 28.6 1.0
CA a:ILE18 4.9 30.5 1.0
C a:CYS19 4.9 31.5 1.0
C a:CYS16 5.0 29.4 1.0

Reference:

Q.Hu, M.V.Botuyan, G.Mer. Crystal Structure of RNF168 (Ring)-UBCH5C Fused to H2A-H2B Via A 4-Residue Linker To Be Published.
Page generated: Thu Oct 31 12:26:07 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy