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Iron in PDB 7o73: Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna

Enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna

All present enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna:
2.7.7.6; 3.6.4.12;

Other elements in 7o73:

The structure of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna also contains other interesting chemical elements:

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

Iron Binding Sites:

The binding sites of Iron atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna (pdb code 7o73). 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 with Closed Distorted Promoter Dna, PDB code: 7o73:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7o73

Go back to Iron Binding Sites List in 7o73
Iron binding site 1 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna


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 with Closed Distorted Promoter Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:130.7
occ:1.00
 FE1 0:SF4801 0.0 130.7 1.0
SG 0:CYS115 2.3 136.7 1.0
S3 0:SF4801 2.3 130.7 1.0
S2 0:SF4801 2.3 130.7 1.0
S4 0:SF4801 2.3 130.7 1.0
FE2 0:SF4801 2.7 130.7 1.0
FE3 0:SF4801 2.7 130.7 1.0
FE4 0:SF4801 2.7 130.7 1.0
CB 0:CYS115 3.3 136.7 1.0
CA 0:CYS115 3.6 136.7 1.0
S1 0:SF4801 3.9 130.7 1.0
N 0:LEU116 4.0 139.9 1.0
CB 0:HIS117 4.2 141.6 1.0
N 0:HIS117 4.2 141.6 1.0
C 0:CYS115 4.3 136.7 1.0
SG 0:CYS133 4.7 141.4 1.0
SG 0:CYS156 4.8 146.9 1.0
CA 0:HIS117 4.8 141.6 1.0
SG 0:CYS191 4.9 138.6 1.0
N 0:CYS115 4.9 136.7 1.0
CB 0:CYS133 5.0 141.4 1.0

Iron binding site 2 out of 4 in 7o73

Go back to Iron Binding Sites List in 7o73
Iron binding site 2 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna


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 with Closed Distorted Promoter Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:130.7
occ:1.00
 FE2 0:SF4801 0.0 130.7 1.0
SG 0:CYS156 2.3 146.9 1.0
S1 0:SF4801 2.3 130.7 1.0
S4 0:SF4801 2.3 130.7 1.0
S3 0:SF4801 2.3 130.7 1.0
FE4 0:SF4801 2.7 130.7 1.0
FE3 0:SF4801 2.7 130.7 1.0
FE1 0:SF4801 2.7 130.7 1.0
CB 0:CYS156 3.6 146.9 1.0
S2 0:SF4801 3.9 130.7 1.0
CB 0:HIS117 4.5 141.6 1.0
CD2 0:HIS117 4.5 141.6 1.0
CB 0:TYR158 4.7 144.7 1.0
SG 0:CYS191 4.7 138.6 1.0
SG 0:CYS115 4.8 136.7 1.0
SG 0:CYS133 4.8 141.4 1.0
CG 0:HIS117 4.9 141.6 1.0
CD1 0:TYR158 4.9 144.7 1.0
CA 0:CYS156 4.9 146.9 1.0

Iron binding site 3 out of 4 in 7o73

Go back to Iron Binding Sites List in 7o73
Iron binding site 3 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna


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 with Closed Distorted Promoter Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:130.7
occ:1.00
 FE3 0:SF4801 0.0 130.7 1.0
SG 0:CYS133 2.3 141.4 1.0
S1 0:SF4801 2.3 130.7 1.0
S2 0:SF4801 2.3 130.7 1.0
S4 0:SF4801 2.3 130.7 1.0
FE4 0:SF4801 2.7 130.7 1.0
FE2 0:SF4801 2.7 130.7 1.0
FE1 0:SF4801 2.7 130.7 1.0
CB 0:CYS133 3.2 141.4 1.0
S3 0:SF4801 3.9 130.7 1.0
CA 0:CYS133 3.9 141.4 1.0
CG2 0:THR137 4.4 144.6 1.0
CE2 0:PHE194 4.5 135.7 1.0
SG 0:CYS191 4.6 138.6 1.0
O 0:CYS133 4.7 141.4 1.0
C 0:CYS133 4.7 141.4 1.0
SG 0:CYS115 4.7 136.7 1.0
SG 0:CYS156 4.8 146.9 1.0
CD 0:ARG111 4.9 130.1 1.0

Iron binding site 4 out of 4 in 7o73

Go back to Iron Binding Sites List in 7o73
Iron binding site 4 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna


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 with Closed Distorted Promoter Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:130.7
occ:1.00
 FE4 0:SF4801 0.0 130.7 1.0
SG 0:CYS191 2.3 138.6 1.0
S1 0:SF4801 2.3 130.7 1.0
S2 0:SF4801 2.3 130.7 1.0
S3 0:SF4801 2.3 130.7 1.0
FE3 0:SF4801 2.7 130.7 1.0
FE2 0:SF4801 2.7 130.7 1.0
FE1 0:SF4801 2.7 130.7 1.0
CB 0:CYS191 3.3 138.6 1.0
S4 0:SF4801 3.9 130.7 1.0
CA 0:CYS191 4.3 138.6 1.0
CD2 0:PHE194 4.5 135.7 1.0
SG 0:CYS133 4.7 141.4 1.0
SG 0:CYS156 4.7 146.9 1.0
CE2 0:PHE194 4.8 135.7 1.0
SG 0:CYS115 4.8 136.7 1.0
CB 0:TYR193 4.8 130.2 1.0
CA 0:CYS115 4.9 136.7 1.0
CB 0:TYR158 5.0 144.7 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 14:14:06 2024

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