Zinc in PDB 5oqj: Structure of Yeast Transcription Pre-Initiation Complex with Tfiih

All present enzymatic activity of Structure of Yeast Transcription Pre-Initiation Complex with Tfiih:
2.7.7.6; 3.6.4.12;

The structure of Structure of Yeast Transcription Pre-Initiation Complex with Tfiih also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Iron	(Fe)	4 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Zinc atom in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih (pdb code 5oqj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 16 binding sites of Zinc where determined in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih, PDB code: 5oqj:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


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 Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1801 b:0.0 occ:1.00 SG A:CYS148 2.4 0.0 1.0 SG A:CYS107 2.4 0.0 1.0 SG A:CYS110 2.4 0.0 1.0 SG A:CYS167 2.4 0.0 1.0 CB A:CYS167 2.6 0.0 1.0 CB A:CYS148 2.9 0.0 1.0 CB A:CYS107 3.2 0.0 1.0 CB A:CYS110 3.7 0.0 1.0 NE2 A:GLN171 3.8 0.0 1.0 CA A:CYS167 4.1 0.0 1.0 N A:CYS110 4.1 0.0 1.0 N A:GLY168 4.2 0.0 1.0 CA A:CYS148 4.4 0.0 1.0 CA A:CYS110 4.5 0.0 1.0 O A:GLY166 4.5 0.0 1.0 CA A:CYS107 4.6 0.0 1.0 C A:CYS167 4.7 0.0 1.0 N A:CYS167 4.8 0.0 1.0 C A:GLY166 5.0 0.0 1.0

Zinc binding site 2 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


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 Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1802 b:0.0 occ:1.00 SG A:CYS67 2.4 0.0 1.0 NE2 A:HIS80 2.4 0.0 1.0 SG A:CYS77 2.4 0.0 1.0 SG A:CYS70 2.4 0.0 1.0 CD2 A:HIS80 2.5 0.0 1.0 CB A:CYS70 2.7 0.0 1.0 CB A:CYS77 3.6 0.0 1.0 CE1 A:HIS80 3.6 0.0 1.0 CG A:HIS80 3.7 0.0 1.0 N A:CYS70 3.7 0.0 1.0 CA A:CYS70 3.8 0.0 1.0 CB A:CYS67 3.9 0.0 1.0 N A:GLY79 4.2 0.0 1.0 ND1 A:HIS80 4.2 0.0 1.0 CA A:CYS77 4.3 0.0 1.0 C A:GLY79 4.3 0.0 1.0 O A:GLY79 4.3 0.0 1.0 CA A:GLY79 4.4 0.0 1.0 CA A:GLY59 4.6 0.0 1.0 O A:LEU58 4.6 0.0 1.0 CD A:PRO78 4.6 0.0 1.0 O A:CYS67 4.7 0.0 1.0 C A:CYS77 4.8 0.0 1.0 N A:HIS80 4.8 0.0 1.0 C A:THR69 4.8 0.0 1.0 CB A:HIS80 4.9 0.0 1.0 C A:CYS70 4.9 0.0 1.0 N A:PRO78 4.9 0.0 1.0 CG2 A:THR69 4.9 0.0 1.0

Zinc binding site 3 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


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 Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1301 b:0.0 occ:1.00 SG B:CYS1185 2.3 0.0 1.0 SG B:CYS1182 2.4 0.0 1.0 SG B:CYS1166 2.4 0.0 1.0 SG B:CYS1163 2.4 0.0 1.0 CB B:CYS1163 2.5 0.0 1.0 CB B:CYS1182 3.2 0.0 1.0 O B:CYS1166 3.7 0.0 1.0 CB B:CYS1185 3.8 0.0 1.0 CB B:CYS1166 3.9 0.0 1.0 N B:CYS1166 3.9 0.0 1.0 CA B:CYS1163 4.0 0.0 1.0 CA B:CYS1166 4.3 0.0 1.0 C B:CYS1166 4.4 0.0 1.0 C B:CYS1163 4.6 0.0 1.0 CA B:CYS1182 4.6 0.0 1.0 N B:CYS1163 4.7 0.0 1.0 C B:CYS1182 4.9 0.0 1.0 N B:ILE1165 4.9 0.0 1.0 N B:GLY1164 5.0 0.0 1.0 O B:CYS1182 5.0 0.0 1.0 CA B:CYS1185 5.0 0.0 1.0

Zinc binding site 4 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


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 Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn401 b:0.0 occ:1.00 SG C:CYS95 2.3 0.0 1.0 SG C:CYS86 2.3 0.0 1.0 SG C:CYS88 2.3 0.0 1.0 SG C:CYS92 2.4 0.0 1.0 CB C:CYS86 2.8 0.0 1.0 CB C:CYS92 3.5 0.0 1.0 CB C:CYS88 3.7 0.0 1.0 N C:CYS92 3.7 0.0 1.0 CB C:CYS95 4.0 0.0 1.0 C C:HIS91 4.1 0.0 1.0 CA C:CYS92 4.2 0.0 1.0 CA C:CYS86 4.2 0.0 1.0 CA C:HIS91 4.4 0.0 1.0 N C:CYS88 4.4 0.0 1.0 N C:CYS95 4.4 0.0 1.0 C C:CYS86 4.5 0.0 1.0 O C:CYS92 4.6 0.0 1.0 CB C:LYS94 4.6 0.0 1.0 CA C:CYS88 4.6 0.0 1.0 C C:CYS92 4.7 0.0 1.0 O C:HIS91 4.7 0.0 1.0 O C:CYS86 4.8 0.0 1.0 CA C:CYS95 4.9 0.0 1.0 O C:ASP90 5.0 0.0 1.0

Zinc binding site 5 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


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 Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn201 b:0.0 occ:1.00 SG I:CYS32 2.3 0.0 1.0 SG I:CYS29 2.3 0.0 1.0 SG I:CYS7 2.4 0.0 1.0 SG I:CYS10 2.4 0.0 1.0 CB I:CYS10 2.4 0.0 1.0 CB I:CYS7 3.2 0.0 1.0 CB I:CYS29 3.3 0.0 1.0 OG1 I:THR31 3.4 0.0 1.0 CB I:CYS32 3.6 0.0 1.0 CA I:CYS10 3.8 0.0 1.0 N I:CYS10 4.2 0.0 1.0 O I:ARG8 4.2 0.0 1.0 N I:CYS32 4.2 0.0 1.0 CA I:CYS32 4.5 0.0 1.0 CB I:THR31 4.6 0.0 1.0 ND2 I:ASN12 4.6 0.0 1.0 CA I:CYS7 4.7 0.0 1.0 CB I:TYR34 4.7 0.0 1.0 C I:CYS10 4.7 0.0 1.0 CA I:CYS29 4.7 0.0 1.0 N I:ASN11 4.9 0.0 1.0

Zinc binding site 6 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


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 Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn202 b:0.0 occ:1.00 SG I:CYS103 2.5 0.0 1.0 SG I:CYS78 2.5 0.0 1.0 SG I:CYS75 2.5 0.0 1.0 SG I:CYS106 2.5 0.0 1.0 CB I:CYS103 2.8 0.0 1.0 CB I:CYS75 3.0 0.0 1.0 OG I:SER105 3.6 0.0 1.0 CB I:CYS78 3.9 0.0 1.0 CB I:CYS106 4.0 0.0 1.0 N I:CYS78 4.1 0.0 1.0 N I:CYS106 4.3 0.0 1.0 CA I:CYS103 4.3 0.0 1.0 CB I:HIS108 4.4 0.0 1.0 CA I:CYS75 4.5 0.0 1.0 CA I:CYS78 4.6 0.0 1.0 CA I:CYS106 4.7 0.0 1.0 CE1 I:PHE110 4.7 0.0 1.0 CB I:LYS77 4.8 0.0 1.0 N I:HIS108 4.8 0.0 1.0 CB I:SER80 4.9 0.0 1.0 CB I:SER105 5.0 0.0 1.0

Zinc binding site 7 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of Yeast Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn101 b:0.0 occ:1.00 SG J:CYS10 2.3 0.0 1.0 SG J:CYS45 2.3 0.0 1.0 SG J:CYS7 2.4 0.0 1.0 SG J:CYS46 2.4 0.0 1.0 N J:CYS46 2.6 0.0 1.0 C J:CYS45 3.0 0.0 1.0 CA J:CYS46 3.1 0.0 1.0 CB J:CYS45 3.2 0.0 1.0 CB J:CYS46 3.3 0.0 1.0 O J:CYS45 3.5 0.0 1.0 CB J:CYS7 3.6 0.0 1.0 CB J:CYS10 3.6 0.0 1.0 CA J:CYS45 3.7 0.0 1.0 N J:CYS10 3.8 0.0 1.0 CB J:SER9 4.3 0.0 1.0 CA J:CYS10 4.4 0.0 1.0 N J:CYS45 4.5 0.0 1.0 C J:CYS46 4.6 0.0 1.0 N J:SER9 4.8 0.0 1.0 C J:SER9 4.9 0.0 1.0 CA J:SER9 4.9 0.0 1.0 N J:GLY11 5.0 0.0 1.0 NE J:ARG43 5.0 0.0 1.0

Zinc binding site 8 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of Yeast Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ L:Zn101 b:0.0 occ:1.00 SG L:CYS31 2.3 0.0 1.0 SG L:CYS48 2.3 0.0 1.0 SG L:CYS51 2.3 0.0 1.0 SG L:CYS34 2.4 0.0 1.0 CB L:CYS31 3.0 0.0 1.0 CB L:CYS48 3.6 0.0 1.0 CB L:CYS34 3.7 0.0 1.0 OG L:SER36 3.7 0.0 1.0 CB L:CYS51 3.8 0.0 1.0 O L:LYS49 4.0 0.0 1.0 N L:CYS51 4.4 0.0 1.0 N L:CYS34 4.4 0.0 1.0 CA L:CYS31 4.5 0.0 1.0 CA L:CYS51 4.6 0.0 1.0 CA L:CYS34 4.6 0.0 1.0 O L:CYS51 4.8 0.0 1.0 CG L:GLU33 4.8 0.0 1.0 CB L:SER36 4.9 0.0 1.0 C L:LYS49 4.9 0.0 1.0 C L:CYS51 5.0 0.0 1.0 CA L:CYS48 5.0 0.0 1.0

Zinc binding site 9 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of Yeast Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ M:Zn401 b:0.0 occ:1.00 SG M:CYS27 2.3 0.0 1.0 SG M:CYS48 2.4 0.0 1.0 SG M:CYS45 2.4 0.0 1.0 SG M:CYS24 2.4 0.0 1.0 CB M:CYS45 2.7 0.0 1.0 CB M:CYS24 3.0 0.0 1.0 CB M:CYS27 3.7 0.0 1.0 CB M:CYS48 3.8 0.0 1.0 N M:CYS48 3.9 0.0 1.0 CA M:CYS45 4.2 0.0 1.0 CA M:CYS48 4.4 0.0 1.0 CA M:CYS24 4.5 0.0 1.0 CB M:LEU50 4.6 0.0 1.0 CB M:LEU47 4.6 0.0 1.0 N M:CYS27 4.6 0.0 1.0 C M:CYS45 4.7 0.0 1.0 N M:LEU50 4.7 0.0 1.0 O M:LEU50 4.8 0.0 1.0 O M:CYS45 4.8 0.0 1.0 CA M:CYS27 4.8 0.0 1.0 N M:GLY49 4.9 0.0 1.0 C M:CYS48 4.9 0.0 1.0 N M:LEU47 4.9 0.0 1.0 CD1 M:LEU52 4.9 0.0 1.0 C M:LEU47 5.0 0.0 1.0 N M:CYS45 5.0 0.0 1.0

Zinc binding site 10 out of 16 in the Structure of Yeast Transcription Pre-Initiation Complex with Tfiih


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Structure of Yeast Transcription Pre-Initiation Complex with Tfiih within 5.0Å range: probe atom residue distance (Å) B Occ W:Zn501 b:0.0 occ:1.00 SG W:CYS124 2.4 0.0 1.0 SG W:CYS152 2.4 0.0 1.0 SG W:CYS149 2.4 0.0 1.0 SG W:CYS127 2.4 0.0 1.0 CB W:CYS152 3.1 0.0 1.0 CB W:CYS127 3.4 0.0 1.0 CB W:CYS149 3.5 0.0 1.0 CB W:CYS124 3.6 0.0 1.0 N W:CYS152 3.7 0.0 1.0 N W:CYS127 3.8 0.0 1.0 CA W:CYS152 4.0 0.0 1.0 CB W:LEU151 4.0 0.0 1.0 CA W:CYS127 4.2 0.0 1.0 C W:LEU151 4.4 0.0 1.0 OH W:TYR131 4.4 0.0 1.0 CE1 W:TYR131 4.6 0.0 1.0 CB W:ILE126 4.6 0.0 1.0 CA W:LEU151 4.6 0.0 1.0 C W:ILE126 4.8 0.0 1.0 CA W:CYS149 4.8 0.0 1.0 N W:LEU151 4.8 0.0 1.0 CZ W:TYR131 4.9 0.0 1.0 CA W:CYS124 5.0 0.0 1.0

S.Schilbach, M.Hantsche, D.Tegunov, C.Dienemann, C.Wigge, H.Urlaub, P.Cramer. Structures of Transcription Pre-Initiation Complex with Tfiih and Mediator. Nature V. 551 204 2017.
ISSN: ESSN 1476-4687
PubMed: 29088706
DOI: 10.1038/NATURE24282