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Iron in PDB 7zsb: Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C

Enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C

All present enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C:
2.7.7.6; 3.6.4.12;

Other elements in 7zsb:

The structure of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Zinc (Zn) 17 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C (pdb code 7zsb). 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 the +1 Nucleosome and Ntp, Complex C, PDB code: 7zsb:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7zsb

Go back to Iron Binding Sites List in 7zsb
Iron binding site 1 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C


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 the +1 Nucleosome and Ntp, Complex C within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:243.7
occ:1.00
 FE1 0:SF4801 0.0 243.7 1.0
SG 0:CYS115 2.3 228.3 1.0
S4 0:SF4801 2.3 243.7 1.0
S2 0:SF4801 2.3 243.7 1.0
S3 0:SF4801 2.3 243.7 1.0
FE4 0:SF4801 2.7 243.7 1.0
FE2 0:SF4801 2.7 243.7 1.0
FE3 0:SF4801 2.7 243.7 1.0
CB 0:CYS115 3.0 228.3 1.0
CA 0:CYS115 3.0 228.3 1.0
N 0:LEU116 3.5 214.6 1.0
C 0:CYS115 3.7 228.3 1.0
S1 0:SF4801 3.9 243.7 1.0
N 0:HIS117 3.9 191.2 1.0
CB 0:HIS117 4.0 191.2 1.0
N 0:CYS115 4.2 228.3 1.0
O 0:LEU114 4.3 217.0 1.0
CA 0:HIS117 4.6 191.2 1.0
CA 0:LEU116 4.7 214.6 1.0
O 0:CYS115 4.7 228.3 1.0
C 0:LEU114 4.7 217.0 1.0
SG 0:CYS191 4.7 202.8 1.0
C 0:LEU116 4.8 214.6 1.0
SG 0:CYS133 4.9 216.2 1.0
SG 0:CYS156 4.9 218.1 1.0

Iron binding site 2 out of 4 in 7zsb

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Iron binding site 2 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C


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 the +1 Nucleosome and Ntp, Complex C within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:243.7
occ:1.00
 FE2 0:SF4801 0.0 243.7 1.0
S1 0:SF4801 2.3 243.7 1.0
S3 0:SF4801 2.3 243.7 1.0
S4 0:SF4801 2.3 243.7 1.0
SG 0:CYS156 2.3 218.1 1.0
FE4 0:SF4801 2.7 243.7 1.0
FE1 0:SF4801 2.7 243.7 1.0
FE3 0:SF4801 2.7 243.7 1.0
CB 0:CYS156 3.3 218.1 1.0
CE 0:MET136 3.8 209.6 1.0
CB 0:HIS117 3.8 191.2 1.0
S2 0:SF4801 3.9 243.7 1.0
CD2 0:HIS117 4.0 191.2 1.0
CG 0:HIS117 4.2 191.2 1.0
SG 0:CYS115 4.4 228.3 1.0
N 0:HIS117 4.5 191.2 1.0
CA 0:HIS117 4.6 191.2 1.0
CB 0:TYR158 4.7 214.4 1.0
CA 0:CYS156 4.8 218.1 1.0
SG 0:CYS133 4.8 216.2 1.0
SG 0:CYS191 4.8 202.8 1.0

Iron binding site 3 out of 4 in 7zsb

Go back to Iron Binding Sites List in 7zsb
Iron binding site 3 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C


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 the +1 Nucleosome and Ntp, Complex C within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:243.7
occ:1.00
 FE3 0:SF4801 0.0 243.7 1.0
S4 0:SF4801 2.3 243.7 1.0
S1 0:SF4801 2.3 243.7 1.0
S2 0:SF4801 2.3 243.7 1.0
SG 0:CYS133 2.3 216.2 1.0
FE4 0:SF4801 2.7 243.7 1.0
FE1 0:SF4801 2.7 243.7 1.0
FE2 0:SF4801 2.7 243.7 1.0
CB 0:CYS133 3.2 216.2 1.0
CE 0:MET136 3.8 209.6 1.0
S3 0:SF4801 3.9 243.7 1.0
CA 0:CYS133 4.3 216.2 1.0
CE2 0:PHE194 4.4 185.6 1.0
SG 0:CYS115 4.5 228.3 1.0
SG 0:CYS191 4.5 202.8 1.0
SG 0:CYS156 4.8 218.1 1.0
CD 0:ARG111 5.0 210.4 1.0

Iron binding site 4 out of 4 in 7zsb

Go back to Iron Binding Sites List in 7zsb
Iron binding site 4 out of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome and Ntp, Complex C


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 the +1 Nucleosome and Ntp, Complex C within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe801

b:243.7
occ:1.00
 FE4 0:SF4801 0.0 243.7 1.0
SG 0:CYS191 2.2 202.8 1.0
S1 0:SF4801 2.3 243.7 1.0
S3 0:SF4801 2.3 243.7 1.0
S2 0:SF4801 2.3 243.7 1.0
FE2 0:SF4801 2.7 243.7 1.0
FE1 0:SF4801 2.7 243.7 1.0
FE3 0:SF4801 2.7 243.7 1.0
CB 0:CYS191 3.1 202.8 1.0
S4 0:SF4801 3.9 243.7 1.0
CA 0:CYS191 4.0 202.8 1.0
SG 0:CYS156 4.3 218.1 1.0
O 0:LEU114 4.4 217.0 1.0
CD2 0:PHE194 4.5 185.6 1.0
CE2 0:PHE194 4.6 185.6 1.0
SG 0:CYS133 4.7 216.2 1.0
CA 0:CYS115 4.7 228.3 1.0
N 0:LEU116 4.8 214.6 1.0
C 0:CYS191 4.8 202.8 1.0
CB 0:TYR158 4.9 214.4 1.0
CB 0:TYR193 4.9 195.6 1.0
CD 0:PRO192 5.0 198.0 1.0
SG 0:CYS115 5.0 228.3 1.0

Reference:

H.Wang, S.Schilbach, M.Ninov, H.Urlaub, P.Cramer. Structures of Transcription Preinitiation Complex Engaged with the +1 Nucleosome. Nat.Struct.Mol.Biol. 2022.
ISSN: ESSN 1545-9985
PubMed: 36411341
DOI: 10.1038/S41594-022-00865-W
Page generated: Fri Aug 9 15:22:29 2024

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