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Iron in PDB 7o4k: Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex

Enzymatic activity of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex

All present enzymatic activity of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex:
2.7.7.6; 3.6.4.12;

Other elements in 7o4k:

The structure of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex also contains other interesting chemical elements:

Fluorine (F) 3 atoms
Magnesium (Mg) 1 atom
Zinc (Zn) 10 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex (pdb code 7o4k). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex, PDB code: 7o4k:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7o4k

Go back to Iron Binding Sites List in 7o4k
Iron binding site 1 out of 4 in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:63.4
occ:1.00
 FE1 0:SF4801 0.0 63.4 1.0
SG 0:CYS115 2.3 61.9 1.0
S2 0:SF4801 2.3 63.4 1.0
S3 0:SF4801 2.3 63.4 1.0
S4 0:SF4801 2.3 63.4 1.0
FE2 0:SF4801 2.7 63.4 1.0
FE3 0:SF4801 2.7 63.4 1.0
FE4 0:SF4801 2.7 63.4 1.0
CB 0:CYS115 3.6 61.9 1.0
S1 0:SF4801 3.9 63.4 1.0
CA 0:CYS115 3.9 61.9 1.0
CB 0:HIS117 4.3 71.2 1.0
N 0:LEU116 4.4 64.6 1.0
N 0:HIS117 4.5 71.2 1.0
C 0:CYS115 4.6 61.9 1.0
SG 0:CYS156 4.8 71.4 1.0
SG 0:CYS133 4.8 66.8 1.0
CB 0:CYS133 4.9 66.8 1.0
SG 0:CYS191 4.9 62.8 1.0
CG1 0:VAL120 4.9 69.8 1.0
O 0:LEU114 5.0 56.1 1.0

Iron binding site 2 out of 4 in 7o4k

Go back to Iron Binding Sites List in 7o4k
Iron binding site 2 out of 4 in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:63.4
occ:1.00
 FE2 0:SF4801 0.0 63.4 1.0
SG 0:CYS156 2.3 71.4 1.0
S1 0:SF4801 2.3 63.4 1.0
S3 0:SF4801 2.3 63.4 1.0
S4 0:SF4801 2.3 63.4 1.0
FE4 0:SF4801 2.7 63.4 1.0
FE1 0:SF4801 2.7 63.4 1.0
FE3 0:SF4801 2.7 63.4 1.0
CB 0:CYS156 3.5 71.4 1.0
S2 0:SF4801 3.9 63.4 1.0
CB 0:HIS117 4.5 71.2 1.0
CD2 0:HIS117 4.6 71.2 1.0
CB 0:TYR158 4.6 64.4 1.0
CE 0:MET136 4.7 71.5 1.0
SG 0:CYS191 4.7 62.8 1.0
CD2 0:TYR158 4.7 64.4 1.0
SG 0:CYS133 4.8 66.8 1.0
SG 0:CYS115 4.8 61.9 1.0
CG 0:HIS117 4.9 71.2 1.0
CA 0:CYS156 4.9 71.4 1.0
N 0:HIS159 4.9 67.0 1.0

Iron binding site 3 out of 4 in 7o4k

Go back to Iron Binding Sites List in 7o4k
Iron binding site 3 out of 4 in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:63.4
occ:1.00
 FE3 0:SF4801 0.0 63.4 1.0
SG 0:CYS133 2.3 66.8 1.0
S1 0:SF4801 2.3 63.4 1.0
S2 0:SF4801 2.3 63.4 1.0
S4 0:SF4801 2.3 63.4 1.0
FE4 0:SF4801 2.7 63.4 1.0
FE1 0:SF4801 2.7 63.4 1.0
FE2 0:SF4801 2.7 63.4 1.0
CB 0:CYS133 2.9 66.8 1.0
CA 0:CYS133 3.8 66.8 1.0
S3 0:SF4801 3.9 63.4 1.0
CG2 0:THR137 4.6 67.4 1.0
SG 0:CYS191 4.6 62.8 1.0
CE2 0:PHE194 4.7 57.0 1.0
NE 0:ARG111 4.7 57.9 1.0
C 0:CYS133 4.7 66.8 1.0
O 0:CYS133 4.7 66.8 1.0
SG 0:CYS115 4.7 61.9 1.0
SG 0:CYS156 4.7 71.4 1.0
N 0:CYS133 4.9 66.8 1.0

Iron binding site 4 out of 4 in 7o4k

Go back to Iron Binding Sites List in 7o4k
Iron binding site 4 out of 4 in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:63.4
occ:1.00
 FE4 0:SF4801 0.0 63.4 1.0
SG 0:CYS191 2.3 62.8 1.0
S1 0:SF4801 2.3 63.4 1.0
S3 0:SF4801 2.3 63.4 1.0
S2 0:SF4801 2.3 63.4 1.0
FE2 0:SF4801 2.7 63.4 1.0
FE3 0:SF4801 2.7 63.4 1.0
FE1 0:SF4801 2.7 63.4 1.0
CB 0:CYS191 3.5 62.8 1.0
S4 0:SF4801 3.9 63.4 1.0
CA 0:CYS191 4.4 62.8 1.0
CD2 0:PHE194 4.6 57.0 1.0
SG 0:CYS133 4.7 66.8 1.0
SG 0:CYS156 4.7 71.4 1.0
O 0:LEU114 4.7 56.1 1.0
SG 0:CYS115 4.8 61.9 1.0
CE2 0:PHE194 4.8 57.0 1.0
CB 0:TYR158 5.0 64.4 1.0

Reference:

S.Schilbach, S.Aibara, C.Dienemann, F.Grabbe, P.Cramer. Structure of Rna Polymerase II Pre-Initiation Complex at 2.9 Angstrom Defines Initial Dna Opening Cell(Cambridge,Mass.) 2021.
ISSN: ISSN 0092-8674
DOI: 10.1016/J.CELL.2021.05.012
Page generated: Thu Aug 8 14:00:35 2024

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