Iron in PDB 7dn3: Structure of Human Rna Polymerase III Elongation Complex

Enzymatic activity of Structure of Human Rna Polymerase III Elongation Complex

All present enzymatic activity of Structure of Human Rna Polymerase III Elongation Complex:
2.7.7.6;

Other elements in 7dn3:

The structure of Structure of Human Rna Polymerase III Elongation Complex also contains other interesting chemical elements:

Zinc (Zn) 6 atoms
Magnesium (Mg) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Structure of Human Rna Polymerase III Elongation Complex (pdb code 7dn3). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Structure of Human Rna Polymerase III Elongation Complex, PDB code: 7dn3:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7dn3

Go back to Iron Binding Sites List in 7dn3
Iron binding site 1 out of 4 in the Structure of Human Rna Polymerase III Elongation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Human Rna Polymerase III Elongation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe401

b:119.5
occ:1.00
 FE1 P:SF4401 0.0 119.5 1.0
S2 P:SF4401 2.1 119.5 1.0
S3 P:SF4401 2.1 119.5 1.0
S4 P:SF4401 2.1 119.5 1.0
SG P:CYS287 2.6 121.3 1.0
FE4 P:SF4401 3.0 119.5 1.0
FE3 P:SF4401 3.0 119.5 1.0
FE2 P:SF4401 3.0 119.5 1.0
CB P:CYS287 3.1 121.3 1.0
S1 P:SF4401 3.7 119.5 1.0
CB O:ASN445 3.9 118.3 1.0
CA P:CYS287 4.0 121.3 1.0
OD1 O:ASN445 4.1 118.3 1.0
CG O:ASN445 4.3 118.3 1.0
SG P:CYS290 4.7 126.7 1.0
CG P:MET310 4.8 121.4 1.0
O P:CYS287 4.9 121.3 1.0
CB P:PRO304 5.0 112.1 1.0
SD P:MET310 5.0 121.4 1.0
N P:CYS287 5.0 121.3 1.0

Iron binding site 2 out of 4 in 7dn3

Go back to Iron Binding Sites List in 7dn3
Iron binding site 2 out of 4 in the Structure of Human Rna Polymerase III Elongation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Human Rna Polymerase III Elongation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe401

b:119.5
occ:1.00
 FE2 P:SF4401 0.0 119.5 1.0
S3 P:SF4401 2.1 119.5 1.0
S1 P:SF4401 2.1 119.5 1.0
S4 P:SF4401 2.1 119.5 1.0
CD2 P:PHE293 2.6 122.0 1.0
CB P:CYS307 3.0 120.8 1.0
FE3 P:SF4401 3.0 119.5 1.0
FE1 P:SF4401 3.0 119.5 1.0
FE4 P:SF4401 3.0 119.5 1.0
SG P:CYS307 3.2 120.8 1.0
CE2 P:PHE293 3.3 122.0 1.0
CG P:PHE293 3.7 122.0 1.0
S2 P:SF4401 3.7 119.5 1.0
CB P:PHE293 4.0 122.0 1.0
CD2 P:TYR309 4.4 119.9 1.0
CA P:CYS307 4.5 120.8 1.0
CB P:TYR309 4.6 119.9 1.0
CZ P:PHE293 4.7 122.0 1.0
O P:PHE293 4.7 122.0 1.0
CA P:PRO304 4.8 112.1 1.0
SG P:CYS290 4.9 126.7 1.0
CB P:PRO304 4.9 112.1 1.0
CD1 P:PHE293 4.9 122.0 1.0

Iron binding site 3 out of 4 in 7dn3

Go back to Iron Binding Sites List in 7dn3
Iron binding site 3 out of 4 in the Structure of Human Rna Polymerase III Elongation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of Human Rna Polymerase III Elongation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe401

b:119.5
occ:1.00
 FE3 P:SF4401 0.0 119.5 1.0
S2 P:SF4401 2.1 119.5 1.0
S1 P:SF4401 2.1 119.5 1.0
S4 P:SF4401 2.1 119.5 1.0
O P:PHE293 2.4 122.0 1.0
FE2 P:SF4401 3.0 119.5 1.0
FE1 P:SF4401 3.0 119.5 1.0
FE4 P:SF4401 3.0 119.5 1.0
C P:PHE293 3.0 122.0 1.0
CB P:PHE293 3.3 122.0 1.0
CA P:PHE293 3.7 122.0 1.0
S3 P:SF4401 3.7 119.5 1.0
N P:ASP294 3.9 118.9 1.0
SG P:CYS287 3.9 121.3 1.0
SG P:CYS290 3.9 126.7 1.0
CD2 P:PHE293 4.0 122.0 1.0
CG P:PHE293 4.1 122.0 1.0
CA P:ASP294 4.2 118.9 1.0
OD1 O:ASN445 4.3 118.3 1.0
SG P:CYS296 4.5 104.7 1.0
C P:ASP294 4.8 118.9 1.0
O P:ASP294 4.9 118.9 1.0
NZ O:LYS441 4.9 114.0 1.0
N P:PHE293 5.0 122.0 1.0
CG O:ASN445 5.0 118.3 1.0

Iron binding site 4 out of 4 in 7dn3

Go back to Iron Binding Sites List in 7dn3
Iron binding site 4 out of 4 in the Structure of Human Rna Polymerase III Elongation Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of Human Rna Polymerase III Elongation Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe401

b:119.5
occ:1.00
 FE4 P:SF4401 0.0 119.5 1.0
S1 P:SF4401 2.1 119.5 1.0
S3 P:SF4401 2.1 119.5 1.0
S2 P:SF4401 2.1 119.5 1.0
CB P:PRO304 2.5 112.1 1.0
FE1 P:SF4401 3.0 119.5 1.0
FE2 P:SF4401 3.0 119.5 1.0
FE3 P:SF4401 3.0 119.5 1.0
CG O:ASN445 3.2 118.3 1.0
CA P:PRO304 3.2 112.1 1.0
OD1 O:ASN445 3.3 118.3 1.0
ND2 O:ASN445 3.4 118.3 1.0
CG P:PRO304 3.4 112.1 1.0
CB O:ASN445 3.7 118.3 1.0
S4 P:SF4401 3.7 119.5 1.0
N P:PRO304 3.8 112.1 1.0
CD P:PRO304 3.8 112.1 1.0
SG P:CYS296 4.2 104.7 1.0
O P:ILE302 4.5 111.4 1.0
C P:PRO304 4.5 112.1 1.0
O P:PHE293 4.5 122.0 1.0
C P:SER303 4.7 113.1 1.0
CB P:CYS307 4.7 120.8 1.0
CB P:CYS296 4.7 104.7 1.0
O P:PRO304 4.8 112.1 1.0
CA O:ASN445 5.0 118.3 1.0

Reference:

L.Li, Z.Yu, D.Zhao, Y.Ren, H.Hou, Y.Xu. Structure of Human Rna Polymerase III Elongation Complex. Cell Res. 2021.
ISSN: ISSN 1001-0602
PubMed: 33674783
DOI: 10.1038/S41422-021-00472-2
Page generated: Sat Apr 3 15:54:44 2021

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