Zinc in PDB 7lyb: Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C

Enzymatic activity of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C

All present enzymatic activity of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C:
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 BRCA1-BARD1-UBCH5C (pdb code 7lyb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C, PDB code: 7lyb:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 7lyb

Go back to Zinc Binding Sites List in 7lyb
Zinc binding site 1 out of 4 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-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 BRCA1-BARD1-UBCH5C within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Zn201

b:161.3
occ:1.00
 SG M:CYS24 2.3 119.9 1.0
SG M:CYS44 2.3 120.0 1.0
SG M:CYS27 2.3 123.0 1.0
SG M:CYS47 2.3 121.0 1.0
CB M:CYS44 2.9 120.0 1.0
CB M:CYS24 3.0 119.9 1.0
CB M:CYS47 3.4 121.0 1.0
NZ M:LYS32 3.4 122.7 1.0
CB M:CYS27 3.7 123.0 1.0
N M:CYS44 3.7 120.0 1.0
N M:CYS27 3.9 123.0 1.0
CA M:CYS44 3.9 120.0 1.0
CA M:CYS27 4.3 123.0 1.0
CA M:CYS24 4.4 119.9 1.0
CE M:LYS32 4.5 122.7 1.0
N M:CYS47 4.6 121.0 1.0
C M:PHE43 4.6 112.6 1.0
CA M:CYS47 4.6 121.0 1.0
CB M:ILE26 4.8 117.3 1.0
C M:CYS44 4.9 120.0 1.0
C M:CYS27 4.9 123.0 1.0
N M:LEU28 4.9 121.5 1.0
CA M:PHE43 5.0 112.6 1.0
C M:ILE26 5.0 117.3 1.0

Zinc binding site 2 out of 4 in 7lyb

Go back to Zinc Binding Sites List in 7lyb
Zinc binding site 2 out of 4 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-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 BRCA1-BARD1-UBCH5C within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Zn202

b:138.4
occ:1.00
 CD2 M:HIS41 1.5 109.5 1.0
NE2 M:HIS41 2.0 109.5 1.0
SG M:CYS39 2.3 106.0 1.0
SG M:CYS61 2.3 109.9 1.0
SG M:CYS64 2.3 113.5 1.0
CG M:HIS41 2.8 109.5 1.0
CB M:CYS39 3.1 106.0 1.0
CE1 M:HIS41 3.3 109.5 1.0
CB M:CYS61 3.6 109.9 1.0
ND1 M:HIS41 3.6 109.5 1.0
CB M:CYS64 3.7 113.5 1.0
N M:CYS64 3.7 113.5 1.0
CB M:HIS41 3.9 109.5 1.0
N M:LYS65 4.0 110.2 1.0
CG M:LYS65 4.0 110.2 1.0
CA M:CYS64 4.1 113.5 1.0
NZ M:LYS65 4.3 110.2 1.0
CB M:LEU63 4.4 110.0 1.0
OG1 M:THR37 4.5 103.2 1.0
CA M:CYS39 4.5 106.0 1.0
C M:CYS64 4.6 113.5 1.0
CB M:LYS65 4.6 110.2 1.0
CD M:LYS65 4.7 110.2 1.0
O M:CYS39 4.7 106.0 1.0
C M:LEU63 4.7 110.0 1.0
C M:CYS39 4.8 106.0 1.0
N M:LEU63 4.8 110.0 1.0
CA M:LYS65 4.9 110.2 1.0
CA M:LEU63 4.9 110.0 1.0
CA M:CYS61 4.9 109.9 1.0
CG M:LEU63 5.0 110.0 1.0

Zinc binding site 3 out of 4 in 7lyb

Go back to Zinc Binding Sites List in 7lyb
Zinc binding site 3 out of 4 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn201

b:158.9
occ:1.00
 SG N:CYS50 2.3 121.6 1.0
SG N:CYS53 2.3 125.0 1.0
SG N:CYS71 2.4 123.8 1.0
SG N:CYS74 2.4 122.8 1.0
CB N:CYS71 2.6 123.8 1.0
N N:CYS71 2.8 123.8 1.0
CB N:CYS53 2.9 125.0 1.0
CA N:CYS71 3.2 123.8 1.0
N N:CYS53 3.3 125.0 1.0
CB N:CYS50 3.5 121.6 1.0
CA N:CYS53 3.7 125.0 1.0
CB N:CYS74 3.9 122.8 1.0
C N:PHE70 3.9 120.7 1.0
O N:CYS71 4.0 123.8 1.0
C N:CYS71 4.0 123.8 1.0
CB N:PHE70 4.3 120.7 1.0
CA N:PHE70 4.4 120.7 1.0
C N:ARG52 4.4 118.4 1.0
CB N:ARG52 4.4 118.4 1.0
CA N:ARG52 4.8 118.4 1.0
N N:ARG52 4.8 118.4 1.0
CA N:CYS50 4.9 121.6 1.0
N N:CYS74 4.9 122.8 1.0
CD1 N:PHE70 4.9 120.7 1.0
C N:CYS53 5.0 125.0 1.0
O N:PHE70 5.0 120.7 1.0

Zinc binding site 4 out of 4 in 7lyb

Go back to Zinc Binding Sites List in 7lyb
Zinc binding site 4 out of 4 in the Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn202

b:130.0
occ:1.00
 ND1 N:HIS68 2.1 107.3 1.0
SG N:CYS86 2.3 92.1 1.0
SG N:CYS83 2.3 96.3 1.0
SG N:CYS66 2.3 98.0 1.0
CG N:HIS68 2.7 107.3 1.0
CB N:HIS68 2.9 107.3 1.0
CB N:CYS66 3.1 98.0 1.0
CE1 N:HIS68 3.1 107.3 1.0
CB N:CYS86 3.2 92.1 1.0
CB N:CYS83 3.4 96.3 1.0
CD2 N:HIS68 3.8 107.3 1.0
N N:CYS86 3.9 92.1 1.0
N N:HIS68 3.9 107.3 1.0
NE2 N:HIS68 4.0 107.3 1.0
CA N:HIS68 4.0 107.3 1.0
CA N:CYS86 4.1 92.1 1.0
CA N:CYS66 4.5 98.0 1.0
N N:GLU67 4.6 107.1 1.0
C N:CYS66 4.7 98.0 1.0
CB N:VAL85 4.8 93.8 1.0
CA N:CYS83 4.8 96.3 1.0
C N:VAL85 5.0 93.8 1.0
C N:HIS68 5.0 107.3 1.0

Reference:

Q.Hu, M.V.Botuyan, D.Zhao, D.Cui, E.Mer, G.Mer. Cryo-Em Structure of the Human Nucleosome Core Particle in Complex with BRCA1-BARD1-UBCH5C To Be Published.
Page generated: Tue Oct 29 23:04:15 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy