Zinc in PDB 7ksr: PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome

Enzymatic activity of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome

All present enzymatic activity of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome:
2.1.1.356;

Zinc Binding Sites:

The binding sites of Zinc atom in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome (pdb code 7ksr). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome, PDB code: 7ksr:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in 7ksr

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Zinc binding site 1 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn801

b:124.3
occ:1.00
CB A:CYS299 2.5 77.5 1.0
SG A:CYS307 2.6 75.7 0.9
SG A:CYS302 2.6 75.8 1.0
SG A:CYS299 2.7 77.5 1.0
CB A:CYS307 2.9 75.7 1.0
N A:CYS307 3.4 75.7 1.0
ND1 A:HIS310 3.5 75.9 1.0
CA A:CYS307 3.7 75.7 1.0
O A:LYS304 3.9 72.9 1.0
CA A:CYS299 4.0 77.5 1.0
C A:LYS304 4.1 72.9 1.0
CB A:LYS304 4.2 72.9 1.0
CB A:HIS310 4.3 75.9 1.0
CG A:HIS310 4.3 75.9 1.0
CB A:CYS302 4.4 75.8 1.0
N A:ASP306 4.4 77.5 1.0
CE1 A:HIS310 4.4 75.9 1.0
CA A:LYS304 4.5 72.9 1.0
N A:LYS304 4.5 72.9 1.0
C A:ASP306 4.6 77.5 1.0
N A:CYS299 4.6 77.5 1.0
N A:TYR305 4.6 75.6 1.0
C A:CYS299 4.7 77.5 1.0
C A:CYS307 4.8 75.7 1.0
CA A:ASP306 4.8 77.5 1.0
C A:TYR305 4.9 75.6 1.0

Zinc binding site 2 out of 7 in 7ksr

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Zinc binding site 2 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn802

b:132.9
occ:1.00
ZN A:ZN803 2.1 139.3 1.0
SG A:CYS531 2.6 112.2 1.0
SG A:CYS550 2.8 102.4 1.0
CB A:CYS550 3.2 102.4 1.0
ZN A:ZN804 3.3 154.8 1.0
SG A:CYS544 3.8 91.8 1.0
SG A:CYS554 4.1 96.0 1.0
CB A:CYS531 4.2 112.2 1.0
ND2 A:ASN556 4.3 96.0 1.0
SG A:CYS548 4.4 97.2 1.0
CB A:ASN556 4.4 96.0 1.0
CE1 A:HIS526 4.5 108.4 1.0
CB A:CYS544 4.6 91.8 1.0
CA A:CYS550 4.7 102.4 1.0
CB A:CYS554 4.8 96.0 1.0
CG A:ASN556 4.9 96.0 1.0
CG A:ARG557 4.9 94.9 1.0

Zinc binding site 3 out of 7 in 7ksr

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Zinc binding site 3 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn803

b:139.3
occ:1.00
ZN A:ZN802 2.1 132.9 1.0
ZN A:ZN804 2.2 154.8 1.0
SG A:CYS544 3.2 91.8 1.0
SG A:CYS531 3.3 112.2 1.0
SG A:CYS537 3.3 100.1 0.9
SG A:CYS524 3.7 105.2 1.0
CE1 A:HIS526 3.8 108.4 1.0
NE2 A:HIS526 3.9 108.4 1.0
ND2 A:ASN556 3.9 96.0 1.0
SG A:CYS535 3.9 106.5 1.0
SG A:CYS548 4.0 97.2 1.0
CB A:CYS537 4.1 100.1 1.0
CB A:CYS550 4.3 102.4 1.0
SG A:CYS550 4.4 102.4 1.0
CB A:CYS531 4.5 112.2 1.0
CB A:CYS544 4.5 91.8 1.0
CG A:ASN556 5.0 96.0 1.0

Zinc binding site 4 out of 7 in 7ksr

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Zinc binding site 4 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn804

b:154.8
occ:1.00
ZN A:ZN803 2.2 139.3 1.0
SG A:CYS524 2.5 105.2 1.0
SG A:CYS548 2.5 97.2 1.0
CE1 A:HIS526 3.1 108.4 1.0
ZN A:ZN802 3.3 132.9 1.0
NE2 A:HIS526 3.4 108.4 1.0
CB A:CYS550 3.5 102.4 1.0
SG A:CYS537 4.1 100.1 0.9
ND1 A:HIS526 4.1 108.4 1.0
CB A:CYS548 4.2 97.2 1.0
SG A:CYS550 4.3 102.4 1.0
CB A:CYS524 4.3 105.2 1.0
SG A:CYS531 4.5 112.2 1.0
CD2 A:HIS526 4.5 108.4 1.0
CA A:CYS550 4.6 102.4 1.0
N A:CYS550 4.7 102.4 1.0
SG A:CYS535 4.7 106.5 1.0
SG A:CYS544 4.7 91.8 1.0
N A:CYS524 4.8 105.2 1.0
CG A:HIS526 4.9 108.4 1.0
CA A:CYS524 5.0 105.2 1.0
O A:CYS524 5.0 105.2 1.0

Zinc binding site 5 out of 7 in 7ksr

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Zinc binding site 5 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn805

b:139.3
occ:1.00
SG A:CYS589 2.5 112.0 1.0
ZN A:ZN807 2.6 142.2 1.0
CB A:CYS581 2.7 100.7 1.0
CB A:CYS586 2.7 100.2 1.0
SG A:CYS581 2.9 100.7 1.0
SG A:CYS586 3.3 100.2 1.0
ZN A:ZN806 3.4 124.0 1.0
O A:ASP582 3.6 90.3 1.0
CA A:CYS581 3.7 100.7 1.0
N A:ASP582 3.7 90.3 1.0
CB A:CYS589 3.8 112.0 1.0
O A:CYS586 4.0 100.2 1.0
C A:CYS581 4.1 100.7 1.0
CB A:ALA591 4.1 94.5 1.0
CA A:CYS586 4.2 100.2 1.0
SG A:CYS561 4.2 97.7 1.0
SG A:CYS602 4.5 106.0 1.0
C A:ASP582 4.5 90.3 1.0
C A:CYS586 4.5 100.2 1.0
CA A:ASP582 4.7 90.3 1.0
N A:CYS581 5.0 100.7 1.0
N A:CYS586 5.0 100.2 1.0

Zinc binding site 6 out of 7 in 7ksr

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Zinc binding site 6 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn806

b:124.0
occ:1.00
SG A:CYS581 2.5 100.7 1.0
SG A:CYS561 2.6 97.7 1.0
ZN A:ZN807 3.1 142.2 1.0
SG A:CYS574 3.1 100.9 1.0
ZN A:ZN805 3.4 139.3 1.0
SG A:CYS567 3.5 103.5 1.0
CB A:CYS561 3.7 97.7 1.0
CB A:CYS581 3.8 100.7 1.0
SG A:CYS572 3.8 108.1 1.0
CB A:CYS574 4.1 100.9 1.0
SG A:CYS586 4.2 100.2 1.0
CA A:CYS581 4.2 100.7 1.0
CB A:CYS586 4.7 100.2 1.0
SG A:CYS589 4.8 112.0 1.0
CB A:CYS589 4.8 112.0 1.0
CB A:CYS567 4.8 103.5 1.0
N A:CYS581 4.9 100.7 1.0
CA A:CYS561 5.0 97.7 1.0

Zinc binding site 7 out of 7 in 7ksr

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Zinc binding site 7 out of 7 in the PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of PRC2:EZH1_A From A Dimeric PRC2 Bound to A Nucleosome within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn807

b:142.2
occ:1.00
ZN A:ZN805 2.6 139.3 1.0
SG A:CYS581 2.6 100.7 1.0
SG A:CYS589 2.7 112.0 1.0
CB A:CYS589 2.7 112.0 1.0
SG A:CYS602 2.8 106.0 1.0
ZN A:ZN806 3.1 124.0 1.0
SG A:CYS567 3.5 103.5 1.0
CB A:CYS602 3.6 106.0 1.0
CB A:CYS581 3.7 100.7 1.0
CA A:CYS589 4.2 112.0 1.0
SG A:CYS561 4.3 97.7 1.0
CA A:CYS602 4.6 106.0 1.0
CB A:CYS586 4.8 100.2 1.0
C A:CYS589 4.8 112.0 1.0

Reference:

D.J.Grau, Y.Zhang, C.H.Lee, M.Valenia-Sanchez, J.Zhang, M.Wang, M.Holder, V.Svetlov, T.Dongyan, E.Nudler, D.Reinberg, T.Walz. Structures of Monomeric and Dimeric PRC2:EZH1 Reveal Flexible Modules Involved in Chromatin Compaction To Be Published.
Page generated: Wed Mar 3 16:22:22 2021

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