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Iron in PDB 7o4j: Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus)

Enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus)

All present enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus):
2.7.7.6; 3.6.4.12;

Other elements in 7o4j:

The structure of Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus) also contains other interesting chemical elements:

Zinc (Zn) 17 atoms
Magnesium (Mg) 2 atoms
Fluorine (F) 3 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus) (pdb code 7o4j). 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 Rna Polymerase II Transcription Pre-Initiation Complex (Consensus), PDB code: 7o4j:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7o4j

Go back to Iron Binding Sites List in 7o4j
Iron binding site 1 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus)


Mono view


Stereo pair view

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

b:54.4
occ:1.00
 FE1 0:SF4801 0.0 54.4 1.0
SG 0:CYS115 2.3 58.6 1.0
S4 0:SF4801 2.3 54.4 1.0
S3 0:SF4801 2.3 54.4 1.0
S2 0:SF4801 2.3 54.4 1.0
FE2 0:SF4801 2.7 54.4 1.0
FE3 0:SF4801 2.7 54.4 1.0
FE4 0:SF4801 2.7 54.4 1.0
CB 0:CYS115 3.3 58.6 1.0
CA 0:CYS115 3.6 58.6 1.0
S1 0:SF4801 3.9 54.4 1.0
CB 0:HIS117 4.1 65.6 1.0
N 0:LEU116 4.2 62.4 1.0
N 0:HIS117 4.3 65.6 1.0
C 0:CYS115 4.3 58.6 1.0
SG 0:CYS156 4.8 67.3 1.0
CB 0:CYS133 4.8 66.3 1.0
SG 0:CYS133 4.8 66.3 1.0
CG1 0:VAL120 4.8 68.1 1.0
CA 0:HIS117 4.8 65.6 1.0
N 0:CYS115 4.9 58.6 1.0
SG 0:CYS191 4.9 58.1 1.0

Iron binding site 2 out of 4 in 7o4j

Go back to Iron Binding Sites List in 7o4j
Iron binding site 2 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus)


Mono view


Stereo pair view

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

b:54.4
occ:1.00
 FE2 0:SF4801 0.0 54.4 1.0
SG 0:CYS156 2.3 67.3 1.0
S1 0:SF4801 2.3 54.4 1.0
S4 0:SF4801 2.3 54.4 1.0
S3 0:SF4801 2.3 54.4 1.0
FE1 0:SF4801 2.7 54.4 1.0
FE4 0:SF4801 2.7 54.4 1.0
FE3 0:SF4801 2.7 54.4 1.0
CB 0:CYS156 3.4 67.3 1.0
S2 0:SF4801 3.9 54.4 1.0
CB 0:HIS117 4.3 65.6 1.0
CB 0:TYR158 4.6 64.3 1.0
CD2 0:HIS117 4.6 65.6 1.0
SG 0:CYS191 4.7 58.1 1.0
SG 0:CYS115 4.7 58.6 1.0
CA 0:CYS156 4.8 67.3 1.0
SG 0:CYS133 4.8 66.3 1.0
CG 0:HIS117 4.8 65.6 1.0
CD1 0:TYR158 4.8 64.3 1.0
CE 0:MET136 4.8 70.7 1.0
N 0:HIS159 4.9 63.1 1.0
CB 0:CYS191 5.0 58.1 1.0
N 0:HIS117 5.0 65.6 1.0

Iron binding site 3 out of 4 in 7o4j

Go back to Iron Binding Sites List in 7o4j
Iron binding site 3 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus)


Mono view


Stereo pair view

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

b:54.4
occ:1.00
 FE3 0:SF4801 0.0 54.4 1.0
SG 0:CYS133 2.3 66.3 1.0
S1 0:SF4801 2.3 54.4 1.0
S2 0:SF4801 2.3 54.4 1.0
S4 0:SF4801 2.3 54.4 1.0
FE4 0:SF4801 2.7 54.4 1.0
FE1 0:SF4801 2.7 54.4 1.0
FE2 0:SF4801 2.7 54.4 1.0
CB 0:CYS133 2.9 66.3 1.0
CA 0:CYS133 3.8 66.3 1.0
S3 0:SF4801 3.9 54.4 1.0
CE2 0:PHE194 4.5 56.9 1.0
NE 0:ARG111 4.5 59.3 1.0
CG2 0:THR137 4.6 67.3 1.0
SG 0:CYS191 4.6 58.1 1.0
C 0:CYS133 4.6 66.3 1.0
O 0:CYS133 4.7 66.3 1.0
SG 0:CYS115 4.8 58.6 1.0
SG 0:CYS156 4.8 67.3 1.0
N 0:CYS133 4.9 66.3 1.0
CD2 0:PHE194 5.0 56.9 1.0
CD 0:ARG111 5.0 59.3 1.0

Iron binding site 4 out of 4 in 7o4j

Go back to Iron Binding Sites List in 7o4j
Iron binding site 4 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex (Consensus)


Mono view


Stereo pair view

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

b:54.4
occ:1.00
 FE4 0:SF4801 0.0 54.4 1.0
SG 0:CYS191 2.3 58.1 1.0
S1 0:SF4801 2.3 54.4 1.0
S3 0:SF4801 2.3 54.4 1.0
S2 0:SF4801 2.3 54.4 1.0
FE3 0:SF4801 2.7 54.4 1.0
FE2 0:SF4801 2.7 54.4 1.0
FE1 0:SF4801 2.7 54.4 1.0
CB 0:CYS191 3.3 58.1 1.0
S4 0:SF4801 3.9 54.4 1.0
CA 0:CYS191 4.3 58.1 1.0
CD2 0:PHE194 4.5 56.9 1.0
SG 0:CYS133 4.6 66.3 1.0
SG 0:CYS156 4.7 67.3 1.0
CA 0:CYS115 4.8 58.6 1.0
SG 0:CYS115 4.8 58.6 1.0
CB 0:TYR193 4.8 56.5 1.0
O 0:LEU114 4.8 56.5 1.0
CE2 0:PHE194 4.8 56.9 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 7 00:55:50 2025

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