Iron in PDB 7nvz: Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position

Enzymatic activity of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position

All present enzymatic activity of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position:
2.3.1.48; 2.7.7.6; 3.6.4.12;

Other elements in 7nvz:

The structure of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position 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 Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position (pdb code 7nvz). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position, PDB code: 7nvz:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7nvz

Go back to Iron Binding Sites List in 7nvz
Iron binding site 1 out of 4 in the Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe1000

b:254.7
occ:1.00
FE1 0:SF41000 0.0 254.7 1.0
SG 0:CYS190 2.2 111.7 1.0
S3 0:SF41000 2.3 254.7 1.0
S4 0:SF41000 2.3 254.7 1.0
S2 0:SF41000 2.3 254.7 1.0
FE4 0:SF41000 2.7 254.7 1.0
FE3 0:SF41000 2.7 254.7 1.0
FE2 0:SF41000 2.7 254.7 1.0
CB 0:CYS190 3.7 111.7 1.0
S1 0:SF41000 3.9 254.7 1.0
CE1 0:PHE193 4.0 106.0 1.0
CD1 0:PHE193 4.1 106.0 1.0
CA 0:CYS190 4.5 111.7 1.0
CB 0:PHE157 4.6 106.5 1.0
SG 0:CYS155 4.6 124.6 1.0
SG 0:CYS134 4.8 125.3 1.0
N 0:TYR158 4.8 118.6 1.0
SG 0:CYS116 4.8 111.6 1.0
CB 0:TYR158 4.9 118.6 1.0

Iron binding site 2 out of 4 in 7nvz

Go back to Iron Binding Sites List in 7nvz
Iron binding site 2 out of 4 in the Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe1000

b:254.7
occ:1.00
FE2 0:SF41000 0.0 254.7 1.0
SG 0:CYS116 2.3 111.6 1.0
S3 0:SF41000 2.3 254.7 1.0
S4 0:SF41000 2.3 254.7 1.0
S1 0:SF41000 2.3 254.7 1.0
FE3 0:SF41000 2.7 254.7 1.0
FE4 0:SF41000 2.7 254.7 1.0
FE1 0:SF41000 2.7 254.7 1.0
CB 0:CYS116 3.8 111.6 1.0
S2 0:SF41000 3.9 254.7 1.0
CB 0:HIS118 4.1 113.6 1.0
N 0:ILE117 4.4 109.4 1.0
N 0:HIS118 4.4 113.6 1.0
CA 0:CYS116 4.5 111.6 1.0
CG2 0:VAL121 4.7 114.2 1.0
SG 0:CYS134 4.7 125.3 1.0
SG 0:CYS155 4.8 124.6 1.0
SG 0:CYS190 4.8 111.7 1.0
CA 0:HIS118 4.9 113.6 1.0
C 0:CYS116 4.9 111.6 1.0

Iron binding site 3 out of 4 in 7nvz

Go back to Iron Binding Sites List in 7nvz
Iron binding site 3 out of 4 in the Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe1000

b:254.7
occ:1.00
FE3 0:SF41000 0.0 254.7 1.0
SG 0:CYS134 2.3 125.3 1.0
S2 0:SF41000 2.3 254.7 1.0
S1 0:SF41000 2.3 254.7 1.0
S4 0:SF41000 2.3 254.7 1.0
FE2 0:SF41000 2.7 254.7 1.0
FE1 0:SF41000 2.7 254.7 1.0
FE4 0:SF41000 2.7 254.7 1.0
CB 0:CYS134 3.4 125.3 1.0
S3 0:SF41000 3.9 254.7 1.0
CA 0:CYS134 4.1 125.3 1.0
CE1 0:PHE193 4.2 106.0 1.0
O 0:CYS134 4.7 125.3 1.0
SG 0:CYS116 4.7 111.6 1.0
SG 0:CYS190 4.8 111.7 1.0
SG 0:CYS155 4.8 124.6 1.0
C 0:CYS134 4.8 125.3 1.0
CZ 0:PHE193 4.9 106.0 1.0

Iron binding site 4 out of 4 in 7nvz

Go back to Iron Binding Sites List in 7nvz
Iron binding site 4 out of 4 in the Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Rna Polymerase II Pre-Initiation Complex with Closed Promoter Dna in Distal Position within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe1000

b:254.7
occ:1.00
FE4 0:SF41000 0.0 254.7 1.0
SG 0:CYS155 2.2 124.6 1.0
S2 0:SF41000 2.3 254.7 1.0
S1 0:SF41000 2.3 254.7 1.0
S3 0:SF41000 2.3 254.7 1.0
FE1 0:SF41000 2.7 254.7 1.0
FE2 0:SF41000 2.7 254.7 1.0
FE3 0:SF41000 2.7 254.7 1.0
CB 0:CYS155 3.7 124.6 1.0
S4 0:SF41000 3.9 254.7 1.0
CB 0:HIS118 4.2 113.6 1.0
CD2 0:PHE157 4.2 106.5 1.0
CD2 0:HIS118 4.4 113.6 1.0
CG 0:HIS118 4.4 113.6 1.0
SG 0:CYS190 4.6 111.7 1.0
SG 0:CYS116 4.7 111.6 1.0
CB 0:PHE157 4.8 106.5 1.0
SG 0:CYS134 4.8 125.3 1.0
CA 0:CYS155 4.9 124.6 1.0

Reference:

S.Aibara, S.Schilbach, P.Cramer. Structures of Mammalian Rna Polymerase II Pre-Initiation Complexes. Nature 2021.
ISSN: ESSN 1476-4687
PubMed: 33902107
DOI: 10.1038/S41586-021-03554-8
Page generated: Sat Jul 10 15:37:21 2021

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy