Iron in PDB 7zs9: Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
Enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
All present enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A):
2.7.7.6;
3.6.4.12;
Other elements in 7zs9:
The structure of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A) also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
(pdb code 7zs9). 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 (Complex A), PDB code: 7zs9:
Jump to Iron binding site number:
1;
2;
3;
4;
Iron binding site 1 out
of 4 in 7zs9
Go back to
Iron Binding Sites List in 7zs9
Iron binding site 1 out
of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
 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 (Complex A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Fe801
b:143.5
occ:1.00
|
FE1
|
0:SF4801
|
0.0
|
143.5
|
1.0
|
SG
|
0:CYS115
|
2.3
|
143.1
|
1.0
|
S3
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S2
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S4
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
FE2
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE3
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE4
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
CB
|
0:CYS115
|
3.4
|
143.1
|
1.0
|
CA
|
0:CYS115
|
3.7
|
143.1
|
1.0
|
S1
|
0:SF4801
|
3.9
|
143.5
|
1.0
|
CB
|
0:HIS117
|
4.1
|
142.8
|
1.0
|
N
|
0:LEU116
|
4.1
|
143.1
|
1.0
|
N
|
0:HIS117
|
4.3
|
142.8
|
1.0
|
C
|
0:CYS115
|
4.4
|
143.1
|
1.0
|
SG
|
0:CYS156
|
4.8
|
146.8
|
1.0
|
SG
|
0:CYS133
|
4.8
|
144.7
|
1.0
|
O
|
0:LEU114
|
4.8
|
140.8
|
1.0
|
CA
|
0:HIS117
|
4.8
|
142.8
|
1.0
|
CB
|
0:CYS133
|
4.9
|
144.7
|
1.0
|
SG
|
0:CYS191
|
4.9
|
141.6
|
1.0
|
CG1
|
0:VAL120
|
4.9
|
145.6
|
1.0
|
N
|
0:CYS115
|
4.9
|
143.1
|
1.0
|
|
Iron binding site 2 out
of 4 in 7zs9
Go back to
Iron Binding Sites List in 7zs9
Iron binding site 2 out
of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
 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 (Complex A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Fe801
b:143.5
occ:1.00
|
FE2
|
0:SF4801
|
0.0
|
143.5
|
1.0
|
SG
|
0:CYS156
|
2.3
|
146.8
|
1.0
|
S1
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S3
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S4
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
FE4
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE1
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE3
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
CB
|
0:CYS156
|
3.4
|
146.8
|
1.0
|
S2
|
0:SF4801
|
3.9
|
143.5
|
1.0
|
CB
|
0:HIS117
|
4.3
|
142.8
|
1.0
|
CD2
|
0:HIS117
|
4.4
|
142.8
|
1.0
|
CB
|
0:TYR158
|
4.4
|
141.6
|
1.0
|
CG
|
0:HIS117
|
4.7
|
142.8
|
1.0
|
SG
|
0:CYS191
|
4.7
|
141.6
|
1.0
|
CA
|
0:CYS156
|
4.8
|
146.8
|
1.0
|
SG
|
0:CYS115
|
4.8
|
143.1
|
1.0
|
CB
|
0:CYS191
|
4.8
|
141.6
|
1.0
|
SG
|
0:CYS133
|
4.8
|
144.7
|
1.0
|
CD2
|
0:TYR158
|
4.8
|
141.6
|
1.0
|
N
|
0:HIS159
|
4.9
|
139.9
|
1.0
|
CB
|
0:HIS159
|
5.0
|
139.9
|
1.0
|
|
Iron binding site 3 out
of 4 in 7zs9
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Iron Binding Sites List in 7zs9
Iron binding site 3 out
of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
 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 (Complex A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Fe801
b:143.5
occ:1.00
|
FE3
|
0:SF4801
|
0.0
|
143.5
|
1.0
|
SG
|
0:CYS133
|
2.3
|
144.7
|
1.0
|
S1
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S2
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S4
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
FE4
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE1
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE2
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
CB
|
0:CYS133
|
2.9
|
144.7
|
1.0
|
CA
|
0:CYS133
|
3.9
|
144.7
|
1.0
|
S3
|
0:SF4801
|
3.9
|
143.5
|
1.0
|
CE2
|
0:PHE194
|
4.4
|
133.8
|
1.0
|
SG
|
0:CYS191
|
4.6
|
141.6
|
1.0
|
C
|
0:CYS133
|
4.7
|
144.7
|
1.0
|
O
|
0:CYS133
|
4.7
|
144.7
|
1.0
|
CD
|
0:ARG111
|
4.7
|
138.6
|
1.0
|
SG
|
0:CYS115
|
4.8
|
143.1
|
1.0
|
SG
|
0:CYS156
|
4.8
|
146.8
|
1.0
|
CD2
|
0:PHE194
|
4.9
|
133.8
|
1.0
|
NE
|
0:ARG111
|
4.9
|
138.6
|
1.0
|
N
|
0:CYS133
|
5.0
|
144.7
|
1.0
|
|
Iron binding site 4 out
of 4 in 7zs9
Go back to
Iron Binding Sites List in 7zs9
Iron binding site 4 out
of 4 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with the +1 Nucleosome (Complex A)
 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 (Complex A) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Fe801
b:143.5
occ:1.00
|
FE4
|
0:SF4801
|
0.0
|
143.5
|
1.0
|
SG
|
0:CYS191
|
2.3
|
141.6
|
1.0
|
S1
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S2
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
S3
|
0:SF4801
|
2.3
|
143.5
|
1.0
|
FE2
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE3
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
FE1
|
0:SF4801
|
2.7
|
143.5
|
1.0
|
CB
|
0:CYS191
|
3.2
|
141.6
|
1.0
|
S4
|
0:SF4801
|
3.9
|
143.5
|
1.0
|
CA
|
0:CYS191
|
4.1
|
141.6
|
1.0
|
CD2
|
0:PHE194
|
4.4
|
133.8
|
1.0
|
O
|
0:LEU114
|
4.4
|
140.8
|
1.0
|
SG
|
0:CYS133
|
4.6
|
144.7
|
1.0
|
SG
|
0:CYS156
|
4.7
|
146.8
|
1.0
|
CE2
|
0:PHE194
|
4.7
|
133.8
|
1.0
|
SG
|
0:CYS115
|
4.8
|
143.1
|
1.0
|
CB
|
0:TYR158
|
4.9
|
141.6
|
1.0
|
CA
|
0:CYS115
|
4.9
|
143.1
|
1.0
|
C
|
0:CYS191
|
4.9
|
141.6
|
1.0
|
CB
|
0:TYR193
|
4.9
|
137.3
|
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 15:20:19 2024
|