Zinc in PDB 7aod: Schizosaccharomyces Pombe Rna Polymerase I (Dimer)

All present enzymatic activity of Schizosaccharomyces Pombe Rna Polymerase I (Dimer):
2.7.7.6;

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Zinc atom in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer) (pdb code 7aod). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer), PDB code: 7aod:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1701 b:158.8 occ:1.00 NE2 A:HIS76 2.0 114.5 1.0 SG A:CYS66 2.2 122.6 1.0 SG A:CYS63 2.2 111.0 1.0 SG A:CYS73 2.4 96.0 1.0 N A:CYS66 2.4 122.6 1.0 CB A:CYS66 2.5 122.6 1.0 CD2 A:HIS76 2.5 114.5 1.0 CB A:CYS63 2.8 111.0 1.0 CA A:CYS66 2.9 122.6 1.0 CE1 A:HIS76 3.2 114.5 1.0 C A:THR65 3.5 115.4 1.0 CB A:THR65 3.6 115.4 1.0 CG A:HIS76 3.7 114.5 1.0 CA A:THR65 3.9 115.4 1.0 CB A:CYS73 3.9 96.0 1.0 C A:CYS66 3.9 122.6 1.0 ND1 A:HIS76 4.0 114.5 1.0 N A:THR65 4.0 115.4 1.0 N A:HIS67 4.2 117.2 1.0 CA A:CYS63 4.2 111.0 1.0 CG2 A:THR65 4.3 115.4 1.0 C A:CYS63 4.5 111.0 1.0 O A:THR65 4.6 115.4 1.0 OG1 A:THR65 4.7 115.4 1.0 O A:CYS63 4.7 111.0 1.0 CA A:CYS73 4.8 96.0 1.0 O A:CYS66 4.9 122.6 1.0

Zinc binding site 2 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1702 b:190.7 occ:1.00 N A:CYS106 1.9 156.3 1.0 CB A:CYS106 2.1 156.3 1.0 CB A:CYS231 2.1 164.3 1.0 CA A:CYS106 2.2 156.3 1.0 SG A:CYS103 2.3 150.2 1.0 SG A:CYS231 2.3 164.3 1.0 SG A:CYS228 2.4 162.7 1.0 OG A:SER233 2.8 160.4 1.0 C A:TYR105 2.9 153.0 1.0 CB A:CYS228 3.3 162.7 1.0 CA A:CYS231 3.6 164.3 1.0 SG A:CYS106 3.6 156.3 1.0 C A:CYS106 3.7 156.3 1.0 CB A:TYR105 3.7 153.0 1.0 CA A:TYR105 3.7 153.0 1.0 O A:TYR105 3.7 153.0 1.0 CB A:CYS103 4.0 150.2 1.0 CB A:SER233 4.0 160.4 1.0 N A:TYR105 4.0 153.0 1.0 C A:CYS231 4.1 164.3 1.0 N A:CYS231 4.2 164.3 1.0 N A:HIS107 4.3 142.5 1.0 N A:SER233 4.4 160.4 1.0 O A:CYS231 4.5 164.3 1.0 O A:CYS106 4.6 156.3 1.0 CA A:SER233 4.7 160.4 1.0 N A:GLN232 4.7 157.1 1.0 CA A:CYS228 4.7 162.7 1.0 C A:SER233 4.9 160.4 1.0 O A:SER233 5.0 160.4 1.0 C A:CYS103 5.0 150.2 1.0

Zinc binding site 3 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1301 b:152.6 occ:1.00 CB B:CYS1118 2.0 116.9 1.0 SG B:CYS1115 2.2 104.0 1.0 SG B:CYS1092 2.2 115.8 1.0 SG B:CYS1089 2.3 114.9 1.0 CB B:CYS1092 2.6 115.8 1.0 N B:CYS1118 2.6 116.9 1.0 CA B:CYS1118 2.7 116.9 1.0 OG B:SER1117 2.9 112.2 1.0 CB B:CYS1115 3.2 104.0 1.0 SG B:CYS1118 3.3 116.9 1.0 CB B:CYS1089 3.4 114.9 1.0 C B:SER1117 3.6 112.2 1.0 CA B:CYS1092 3.7 115.8 1.0 N B:CYS1092 3.8 115.8 1.0 OG B:SER1097 4.0 103.9 1.0 C B:CYS1118 4.1 116.9 1.0 CB B:SER1117 4.1 112.2 1.0 CA B:SER1117 4.3 112.2 1.0 N B:SER1117 4.5 112.2 1.0 O B:SER1117 4.5 112.2 1.0 CA B:CYS1115 4.6 104.0 1.0 N B:ALA1119 4.7 114.8 1.0 C B:CYS1092 4.8 115.8 1.0 CA B:CYS1089 4.8 114.9 1.0 O B:CYS1118 4.8 116.9 1.0 C B:CYS1115 4.8 104.0 1.0

Zinc binding site 4 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn201 b:229.5 occ:1.00 CB I:CYS27 2.1 217.3 1.0 CB I:CYS10 2.2 178.7 1.0 SG I:CYS13 2.3 194.9 1.0 SG I:CYS30 2.3 214.8 1.0 SG I:CYS10 2.3 178.7 1.0 SG I:CYS27 2.3 217.3 1.0 CD2 I:LEU17 3.4 180.4 1.0 CA I:CYS27 3.5 217.3 1.0 CA I:CYS10 3.7 178.7 1.0 CB I:CYS13 4.0 194.9 1.0 N I:CYS27 4.0 217.3 1.0 CB I:CYS30 4.1 214.8 1.0 N I:CYS13 4.3 194.9 1.0 CB I:ASN15 4.3 179.1 1.0 O I:CYS13 4.4 194.9 1.0 N I:CYS10 4.4 178.7 1.0 CE2 I:TYR34 4.4 211.3 1.0 O I:ASN15 4.4 179.1 1.0 CA I:CYS13 4.5 194.9 1.0 C I:CYS13 4.6 194.9 1.0 CG I:LEU17 4.6 180.4 1.0 C I:CYS27 4.6 217.3 1.0 C I:CYS10 4.7 178.7 1.0 CB I:SER32 4.7 210.3 1.0 N I:ASN15 4.8 179.1 1.0 OH I:TYR34 4.8 211.3 1.0 OG I:SER32 4.8 210.3 1.0 N I:SER11 4.9 187.6 1.0

Zinc binding site 5 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn101 b:159.7 occ:1.00 CB J:CYS10 2.1 106.5 1.0 SG J:CYS10 2.2 106.5 1.0 N J:CYS45 2.2 111.5 1.0 N J:CYS10 2.3 106.5 1.0 SG J:CYS45 2.3 111.5 1.0 CB J:CYS45 2.4 111.5 1.0 CA J:CYS45 2.5 111.5 1.0 SG J:CYS7 2.5 84.3 1.0 SG J:CYS44 2.5 100.2 1.0 CA J:CYS10 2.6 106.5 1.0 OG J:SER9 2.7 85.2 1.0 C J:CYS44 3.0 100.2 1.0 C J:SER9 3.5 85.2 1.0 CB J:CYS44 3.5 100.2 1.0 O J:CYS44 3.7 100.2 1.0 CB J:SER9 3.8 85.2 1.0 C J:CYS10 3.8 106.5 1.0 CB J:CYS7 3.8 84.3 1.0 CA J:CYS44 3.9 100.2 1.0 C J:CYS45 4.0 111.5 1.0 CA J:SER9 4.0 85.2 1.0 N J:SER9 4.2 85.2 1.0 O J:CYS10 4.2 106.5 1.0 O J:SER9 4.5 85.2 1.0 N J:ARG46 4.7 89.8 1.0 N J:GLY11 4.7 88.7 1.0 O J:CYS45 4.8 111.5 1.0 N J:CYS44 4.8 100.2 1.0 C J:CYS7 5.0 84.3 1.0

Zinc binding site 6 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ L:Zn101 b:137.5 occ:1.00 CB L:CYS41 2.0 102.2 1.0 SG L:CYS44 2.1 105.5 1.0 SG L:CYS24 2.1 99.1 1.0 SG L:CYS41 2.3 102.2 1.0 SG L:CYS27 2.5 111.5 1.0 CB L:HIS46 2.5 101.4 1.0 N L:HIS46 2.7 101.4 1.0 OD1 L:ASP26 2.9 108.3 1.0 CA L:HIS46 3.2 101.4 1.0 CA L:CYS41 3.5 102.2 1.0 N L:GLY45 3.6 103.0 1.0 CB L:CYS44 3.7 105.5 1.0 CB L:CYS24 3.7 99.1 1.0 CG L:HIS46 3.8 101.4 1.0 CB L:CYS27 3.9 111.5 1.0 C L:GLY45 3.9 103.0 1.0 CG L:ASP26 3.9 108.3 1.0 C L:HIS46 4.1 101.4 1.0 O L:HIS46 4.1 101.4 1.0 C L:CYS44 4.1 105.5 1.0 N L:CYS41 4.1 102.2 1.0 OD2 L:ASP26 4.1 108.3 1.0 CA L:CYS44 4.2 105.5 1.0 CA L:GLY45 4.3 103.0 1.0 N L:CYS44 4.3 105.5 1.0 N L:CYS27 4.3 111.5 1.0 ND1 L:HIS46 4.4 101.4 1.0 C L:CYS41 4.4 102.2 1.0 CA L:CYS24 4.7 99.1 1.0 CA L:CYS27 4.7 111.5 1.0 O L:CYS41 4.8 102.2 1.0 O L:GLY45 4.9 103.0 1.0 O L:CYS44 5.0 105.5 1.0

Zinc binding site 7 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ M:Zn1701 b:160.1 occ:1.00 NE2 M:HIS76 2.0 111.2 1.0 SG M:CYS66 2.2 124.1 1.0 SG M:CYS63 2.2 111.0 1.0 SG M:CYS73 2.4 94.0 1.0 N M:CYS66 2.4 124.1 1.0 CB M:CYS66 2.5 124.1 1.0 CD2 M:HIS76 2.5 111.2 1.0 CB M:CYS63 2.8 111.0 1.0 CA M:CYS66 2.9 124.1 1.0 CE1 M:HIS76 3.2 111.2 1.0 C M:THR65 3.5 115.1 1.0 CB M:THR65 3.6 115.1 1.0 CG M:HIS76 3.7 111.2 1.0 CA M:THR65 3.9 115.1 1.0 CB M:CYS73 3.9 94.0 1.0 C M:CYS66 3.9 124.1 1.0 ND1 M:HIS76 4.0 111.2 1.0 N M:THR65 4.0 115.1 1.0 N M:HIS67 4.2 118.2 1.0 CA M:CYS63 4.2 111.0 1.0 CG2 M:THR65 4.3 115.1 1.0 C M:CYS63 4.5 111.0 1.0 O M:THR65 4.6 115.1 1.0 OG1 M:THR65 4.7 115.1 1.0 O M:CYS63 4.7 111.0 1.0 CA M:CYS73 4.8 94.0 1.0 O M:CYS66 4.9 124.1 1.0

Zinc binding site 8 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ M:Zn1702 b:191.4 occ:1.00 N M:CYS106 1.9 158.9 1.0 CB M:CYS106 2.1 158.9 1.0 CB M:CYS231 2.1 167.1 1.0 CA M:CYS106 2.2 158.9 1.0 SG M:CYS103 2.3 151.8 1.0 SG M:CYS231 2.3 167.1 1.0 SG M:CYS228 2.4 165.6 1.0 OG M:SER233 2.8 164.6 1.0 C M:TYR105 2.9 155.1 1.0 CB M:CYS228 3.3 165.6 1.0 CA M:CYS231 3.6 167.1 1.0 SG M:CYS106 3.6 158.9 1.0 C M:CYS106 3.7 158.9 1.0 CB M:TYR105 3.7 155.1 1.0 CA M:TYR105 3.7 155.1 1.0 O M:TYR105 3.7 155.1 1.0 CB M:CYS103 4.0 151.8 1.0 CB M:SER233 4.0 164.6 1.0 N M:TYR105 4.0 155.1 1.0 C M:CYS231 4.1 167.1 1.0 N M:CYS231 4.2 167.1 1.0 N M:HIS107 4.3 144.4 1.0 N M:SER233 4.4 164.6 1.0 O M:CYS231 4.5 167.1 1.0 O M:CYS106 4.6 158.9 1.0 CA M:SER233 4.7 164.6 1.0 N M:GLN232 4.7 161.4 1.0 CA M:CYS228 4.7 165.6 1.0 C M:SER233 4.9 164.6 1.0 O M:SER233 5.0 164.6 1.0 C M:CYS103 5.0 151.8 1.0

Zinc binding site 9 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn1301 b:150.2 occ:1.00 CB N:CYS1118 2.0 115.8 1.0 SG N:CYS1115 2.2 103.2 1.0 SG N:CYS1092 2.2 117.4 1.0 SG N:CYS1089 2.3 117.1 1.0 CB N:CYS1092 2.6 117.4 1.0 N N:CYS1118 2.6 115.8 1.0 CA N:CYS1118 2.7 115.8 1.0 OG N:SER1117 2.9 109.8 1.0 CB N:CYS1115 3.2 103.2 1.0 SG N:CYS1118 3.3 115.8 1.0 CB N:CYS1089 3.4 117.1 1.0 C N:SER1117 3.6 109.8 1.0 CA N:CYS1092 3.7 117.4 1.0 N N:CYS1092 3.8 117.4 1.0 OG N:SER1097 4.0 102.5 1.0 C N:CYS1118 4.1 115.8 1.0 CB N:SER1117 4.1 109.8 1.0 CA N:SER1117 4.3 109.8 1.0 N N:SER1117 4.5 109.8 1.0 O N:SER1117 4.5 109.8 1.0 CA N:CYS1115 4.6 103.2 1.0 N N:ALA1119 4.7 111.2 1.0 C N:CYS1092 4.8 117.4 1.0 CA N:CYS1089 4.8 117.1 1.0 O N:CYS1118 4.8 115.8 1.0 C N:CYS1115 4.8 103.2 1.0

Zinc binding site 10 out of 12 in the Schizosaccharomyces Pombe Rna Polymerase I (Dimer)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Schizosaccharomyces Pombe Rna Polymerase I (Dimer) within 5.0Å range: probe atom residue distance (Å) B Occ U:Zn201 b:220.2 occ:1.00 CB U:CYS27 2.1 202.4 1.0 CB U:CYS10 2.2 173.5 1.0 SG U:CYS13 2.3 186.1 1.0 SG U:CYS30 2.3 200.8 1.0 SG U:CYS10 2.3 173.5 1.0 SG U:CYS27 2.3 202.4 1.0 CD2 U:LEU17 3.4 167.5 1.0 CA U:CYS27 3.5 202.4 1.0 CA U:CYS10 3.7 173.5 1.0 CB U:CYS13 4.0 186.1 1.0 N U:CYS27 4.0 202.4 1.0 CB U:CYS30 4.1 200.8 1.0 N U:CYS13 4.3 186.1 1.0 CB U:ASN15 4.3 168.4 1.0 O U:CYS13 4.4 186.1 1.0 N U:CYS10 4.4 173.5 1.0 CE2 U:TYR34 4.4 195.0 1.0 O U:ASN15 4.4 168.4 1.0 CA U:CYS13 4.5 186.1 1.0 C U:CYS13 4.6 186.1 1.0 CG U:LEU17 4.6 167.5 1.0 C U:CYS27 4.6 202.4 1.0 C U:CYS10 4.7 173.5 1.0 CB U:SER32 4.7 194.8 1.0 N U:ASN15 4.8 168.4 1.0 OH U:TYR34 4.8 195.0 1.0 OG U:SER32 4.8 194.8 1.0 N U:SER11 4.9 169.8 1.0 N U:SER32 5.0 194.8 1.0

F.B.Heiss, J.L.Daiss, P.Becker, C.Engel. Conserved Strategies of Rna Polymerase I Hibernation and Activation. Nat Commun V. 12 758 2021.
ISSN: ESSN 2041-1723
PubMed: 33536435
DOI: 10.1038/S41467-021-21031-8