Zinc in PDB 7z31: Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).

Enzymatic activity of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).

All present enzymatic activity of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).:
2.7.7.6;

Other elements in 7z31:

The structure of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). (pdb code 7z31). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore)., PDB code: 7z31:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 7z31

Go back to Zinc Binding Sites List in 7z31
Zinc binding site 1 out of 6 in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1501

b:111.2
occ:1.00
 NE2 A:HIS80 2.0 61.9 1.0
SG A:CYS70 2.2 73.6 1.0
SG A:CYS67 2.3 81.7 1.0
SG A:CYS77 2.3 58.9 1.0
CD2 A:HIS80 2.4 56.7 1.0
CB A:CYS67 3.0 74.9 1.0
CB A:CYS70 3.2 72.7 1.0
CE1 A:HIS80 3.3 56.6 1.0
N A:CYS70 3.3 72.7 1.0
CG A:HIS80 3.7 54.2 1.0
CA A:CYS70 3.8 73.3 1.0
CB A:CYS77 3.9 57.1 1.0
CB A:THR69 4.0 68.3 1.0
ND1 A:HIS80 4.0 56.6 1.0
C A:THR69 4.2 70.0 1.0
CA A:CYS67 4.5 74.9 1.0
CA A:THR69 4.5 72.0 1.0
CA A:CYS77 4.6 57.1 1.0
N A:THR69 4.6 74.2 1.0
C A:CYS70 4.7 73.5 1.0
CG2 A:THR69 4.7 70.0 1.0
N A:HIS71 4.8 77.9 1.0
OG1 A:THR69 4.8 66.5 1.0
CB A:HIS80 4.9 54.8 1.0
N A:HIS78 5.0 54.6 1.0
N A:GLY79 5.0 52.3 1.0

Zinc binding site 2 out of 6 in 7z31

Go back to Zinc Binding Sites List in 7z31
Zinc binding site 2 out of 6 in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1502

b:116.2
occ:1.00
 SG A:CYS110 2.3 79.1 1.0
SG A:CYS157 2.4 90.2 1.0
SG A:CYS107 2.4 85.6 1.0
SG A:CYS154 2.4 80.8 1.0
O A:CYS157 2.6 76.9 1.0
CB A:CYS154 3.0 79.5 1.0
N A:CYS157 3.2 78.9 1.0
C A:CYS157 3.3 79.8 1.0
CB A:CYS110 3.5 73.5 1.0
CB A:CYS157 3.5 81.5 1.0
CA A:CYS157 3.5 79.8 1.0
CB A:CYS107 3.7 74.5 1.0
N A:CYS110 3.9 76.0 1.0
ND1 A:HIS156 4.2 81.0 1.0
CB A:HIS156 4.2 79.9 1.0
C A:HIS156 4.3 81.6 1.0
CA A:CYS110 4.3 75.1 1.0
CA A:CYS154 4.4 79.0 1.0
N A:GLY158 4.5 80.7 1.0
CB A:ASN109 4.6 77.4 1.0
CA A:HIS156 4.7 79.8 1.0
CG A:HIS156 4.7 81.9 1.0
C A:CYS154 4.7 76.7 1.0
O A:CYS154 4.7 75.6 1.0
N A:HIS156 4.8 79.8 1.0
C A:ASN109 5.0 77.6 1.0

Zinc binding site 3 out of 6 in 7z31

Go back to Zinc Binding Sites List in 7z31
Zinc binding site 3 out of 6 in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2000

b:118.0
occ:1.00
 SG B:CYS1095 2.3 49.2 1.0
SG B:CYS1098 2.3 50.7 1.0
SG B:CYS1107 2.3 59.2 1.0
SG B:CYS1110 2.3 67.7 1.0
N B:CYS1098 3.3 46.1 1.0
CB B:CYS1110 3.3 60.7 1.0
CB B:CYS1095 3.3 43.9 1.0
CB B:CYS1098 3.5 44.5 1.0
CB B:CYS1107 3.7 59.1 1.0
CB B:LYS1097 3.8 44.1 1.0
CA B:CYS1098 4.0 41.5 1.0
N B:CYS1110 4.1 61.7 1.0
O B:CYS1098 4.3 53.7 1.0
C B:LYS1097 4.3 46.8 1.0
CA B:CYS1110 4.3 62.1 1.0
CA B:LYS1097 4.4 42.1 1.0
CG B:LYS1097 4.4 48.0 1.0
N B:LYS1097 4.4 46.8 1.0
C B:CYS1098 4.6 47.2 1.0
CA B:CYS1095 4.7 42.6 1.0
CA B:CYS1107 4.9 58.3 1.0

Zinc binding site 4 out of 6 in 7z31

Go back to Zinc Binding Sites List in 7z31
Zinc binding site 4 out of 6 in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn2000

b:104.7
occ:1.00
 SG I:CYS8 2.2 72.3 1.0
SG I:CYS5 2.2 68.5 1.0
SG I:CYS26 2.3 71.0 1.0
SG I:CYS29 2.3 77.3 1.0
CB I:CYS5 2.5 63.5 1.0
CB I:CYS29 3.5 70.4 1.0
N I:CYS8 3.5 63.2 1.0
CB I:CYS8 3.6 66.2 1.0
CB I:CYS26 3.8 64.9 1.0
O I:ARG27 3.9 69.0 1.0
CA I:CYS5 4.0 61.7 1.0
CA I:CYS8 4.0 65.8 1.0
CB I:ASN10 4.2 56.2 1.0
N I:ASN10 4.2 57.7 1.0
C I:CYS8 4.4 64.5 1.0
N I:ASN9 4.4 61.1 1.0
OG I:SER28 4.4 70.9 1.0
CB I:SER7 4.4 68.3 1.0
C I:SER7 4.6 65.6 1.0
C I:CYS5 4.6 62.8 1.0
N I:SER7 4.7 64.6 1.0
CB I:TYR31 4.7 67.5 1.0
CA I:ASN10 4.7 55.1 1.0
CA I:CYS29 4.7 70.8 1.0
N I:CYS5 4.7 62.6 1.0
CA I:SER7 4.8 66.1 1.0
N I:CYS29 4.9 68.8 1.0
O I:CYS5 4.9 67.2 1.0

Zinc binding site 5 out of 6 in 7z31

Go back to Zinc Binding Sites List in 7z31
Zinc binding site 5 out of 6 in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn2000

b:50.2
occ:1.00
 SG J:CYS10 2.2 20.7 1.0
SG J:CYS45 2.2 16.6 1.0
SG J:CYS7 2.3 17.4 1.0
SG J:CYS46 2.3 24.4 1.0
N J:CYS46 2.8 13.4 1.0
CB J:CYS45 3.2 14.2 1.0
CB J:CYS7 3.3 3.5 1.0
CA J:CYS46 3.3 6.8 1.0
CB J:CYS10 3.4 8.6 1.0
CB J:CYS46 3.4 11.9 1.0
C J:CYS45 3.4 12.6 1.0
CA J:CYS45 3.8 10.8 1.0
N J:CYS10 3.8 16.8 1.0
NE J:ARG43 4.1 17.1 1.0
O J:CYS45 4.2 18.5 1.0
CA J:CYS10 4.2 9.7 1.0
CB J:ARG43 4.3 13.8 1.0
N J:CYS45 4.3 7.6 1.0
CD J:ARG43 4.6 17.4 1.0
CB J:SER9 4.7 14.8 1.0
CA J:CYS7 4.8 0.5 1.0
C J:CYS46 4.8 11.6 1.0
O J:ARG43 4.9 21.9 1.0
C J:SER9 4.9 23.5 1.0

Zinc binding site 6 out of 6 in 7z31

Go back to Zinc Binding Sites List in 7z31
Zinc binding site 6 out of 6 in the Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore).


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Yeast Rna Polymerase III-TY1 Integrase Complex at 2.7 A (Focus Subunit C11, No C11 C-Terminal Zn-Ribbon in the Funnel Pore). within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn101

b:96.2
occ:1.00
 SG L:CYS34 2.2 47.1 1.0
SG L:CYS31 2.3 51.2 1.0
SG L:CYS51 2.3 53.9 1.0
SG L:CYS48 2.3 53.2 1.0
CB L:CYS31 2.9 32.8 1.0
CB L:CYS48 3.0 46.7 1.0
CB L:CYS34 3.7 44.9 1.0
CB L:CYS51 3.9 52.4 1.0
N L:CYS34 3.9 44.6 1.0
N L:CYS51 4.0 53.4 1.0
CB L:HIS53 4.2 41.4 1.0
CA L:CYS31 4.3 34.3 1.0
CA L:CYS34 4.4 42.7 1.0
CA L:CYS51 4.4 49.3 1.0
CB L:GLU33 4.4 39.8 1.0
CA L:CYS48 4.5 50.9 1.0
C L:CYS51 4.7 54.6 1.0
O L:CYS51 4.8 61.0 1.0
CB L:ASP50 4.8 55.0 1.0
N L:HIS53 4.8 37.6 1.0
C L:GLU33 4.9 42.8 1.0
CG L:GLU33 4.9 42.4 1.0
N L:GLU33 4.9 40.0 1.0
C L:CYS31 5.0 42.5 1.0
OG L:SER36 5.0 49.0 1.0
CA L:GLU33 5.0 38.2 1.0

Reference:

P.Q.Nguyen, S.Huecas, A.Asif-Laidin, A.Plaza-Pegueroles, B.Capuzzi, N.Palmic, C.Conesa, J.Acker, J.Reguera, P.Lesage, C.Fernandez-Tornero. Structural Basis of TY1 Integrase Tethering to Rna Polymerase III For Targeted Retrotransposon Integration. Nat Commun V. 14 1729 2023.
ISSN: ESSN 2041-1723
PubMed: 36977686
DOI: 10.1038/S41467-023-37109-4
Page generated: Tue Apr 11 18:21:31 2023

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy