Atomistry » Iron » PDB 7nkz-7o4j » 7nvz
Atomistry »
  Iron »
    PDB 7nkz-7o4j »
      7nvz »

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: Thu Aug 7 00:15:01 2025

Last articles

Mg in 5ZKJ
Mg in 5ZKI
Mg in 5ZK6
Mg in 5ZE9
Mg in 5ZFX
Mg in 5ZCT
Mg in 5ZE6
Mg in 5ZE4
Mg in 5ZDN
Mg in 5ZE0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy