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Iron in PDB 9fsp: Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2)

Enzymatic activity of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2)

All present enzymatic activity of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2):
2.7.7.6;

Other elements in 9fsp:

The structure of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2) also contains other interesting chemical elements:

Zinc (Zn) 9 atoms
Magnesium (Mg) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2) (pdb code 9fsp). 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 III Class III Open Pre-Initation Complex 2 (OC2), PDB code: 9fsp:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 9fsp

Go back to Iron Binding Sites List in 9fsp
Iron binding site 1 out of 4 in the Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:93.5
occ:1.00
 FE1 F:SF4401 0.0 93.5 1.0
SG F:CYS290 1.9 95.5 1.0
CB F:CYS290 2.0 95.5 1.0
S4 F:SF4401 2.3 93.5 1.0
S3 F:SF4401 2.3 93.5 1.0
S2 F:SF4401 2.3 93.5 1.0
FE4 F:SF4401 2.7 93.5 1.0
FE3 F:SF4401 2.7 93.5 1.0
FE2 F:SF4401 2.7 93.5 1.0
O F:VAL292 3.0 91.1 1.0
CA F:CYS290 3.5 95.5 1.0
O F:CYS287 3.8 96.9 1.0
S1 F:SF4401 3.9 93.5 1.0
SG F:CYS307 3.9 97.3 1.0
C F:VAL292 4.1 91.1 1.0
C F:CYS290 4.1 95.5 1.0
O F:CYS290 4.2 95.5 1.0
N F:CYS290 4.3 95.5 1.0
CA F:PHE293 4.4 91.2 1.0
CA F:CYS287 4.5 96.9 1.0
C F:CYS287 4.6 96.9 1.0
N F:PHE293 4.7 91.2 1.0
SG F:CYS296 4.8 89.3 1.0
CD1 F:PHE293 4.9 91.2 1.0
CD2 F:TYR309 4.9 96.8 1.0
SG F:CYS287 5.0 96.9 1.0

Iron binding site 2 out of 4 in 9fsp

Go back to Iron Binding Sites List in 9fsp
Iron binding site 2 out of 4 in the Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:93.5
occ:1.00
 FE2 F:SF4401 0.0 93.5 1.0
SG F:CYS307 1.7 97.3 1.0
S1 F:SF4401 2.3 93.5 1.0
S3 F:SF4401 2.3 93.5 1.0
S4 F:SF4401 2.3 93.5 1.0
FE4 F:SF4401 2.7 93.5 1.0
FE3 F:SF4401 2.7 93.5 1.0
FE1 F:SF4401 2.7 93.5 1.0
SG F:CYS296 2.8 89.3 1.0
CB F:CYS307 3.4 97.3 1.0
CE F:MET310 3.8 98.0 1.0
S2 F:SF4401 3.9 93.5 1.0
SG F:CYS290 3.9 95.5 1.0
CB F:CYS296 4.0 89.3 1.0
SG F:CYS287 4.4 96.9 1.0
CB F:CYS290 4.5 95.5 1.0
CA F:CYS307 4.5 97.3 1.0
ND2 C:ASN445 4.8 105.2 1.0
O F:VAL292 4.9 91.1 1.0

Iron binding site 3 out of 4 in 9fsp

Go back to Iron Binding Sites List in 9fsp
Iron binding site 3 out of 4 in the Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:93.5
occ:1.00
 FE3 F:SF4401 0.0 93.5 1.0
S2 F:SF4401 2.3 93.5 1.0
S4 F:SF4401 2.3 93.5 1.0
S1 F:SF4401 2.3 93.5 1.0
FE2 F:SF4401 2.7 93.5 1.0
FE1 F:SF4401 2.7 93.5 1.0
FE4 F:SF4401 2.7 93.5 1.0
CB F:CYS296 2.8 89.3 1.0
SG F:CYS296 3.2 89.3 1.0
O F:VAL292 3.7 91.1 1.0
S3 F:SF4401 3.9 93.5 1.0
O F:PHE293 4.1 91.2 1.0
CA F:PHE293 4.1 91.2 1.0
C F:PHE293 4.1 91.2 1.0
O F:ASP294 4.1 90.4 1.0
CA F:CYS296 4.2 89.3 1.0
SG F:CYS290 4.3 95.5 1.0
SG F:CYS307 4.3 97.3 1.0
N F:CYS296 4.4 89.3 1.0
CB F:CYS290 4.6 95.5 1.0
CD2 F:PHE293 4.6 91.2 1.0
SG F:CYS287 4.7 96.9 1.0
C F:VAL292 4.7 91.1 1.0
ND2 C:ASN445 4.7 105.2 1.0
CG F:PHE293 4.8 91.2 1.0
N F:ASP294 4.8 90.4 1.0
O F:CYS296 4.9 89.3 1.0
CE2 F:PHE293 4.9 91.2 1.0
N F:PHE293 5.0 91.2 1.0
C F:ASP294 5.0 90.4 1.0

Iron binding site 4 out of 4 in 9fsp

Go back to Iron Binding Sites List in 9fsp
Iron binding site 4 out of 4 in the Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Rna Polymerase III Class III Open Pre-Initation Complex 2 (OC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:93.5
occ:1.00
 FE4 F:SF4401 0.0 93.5 1.0
S1 F:SF4401 2.3 93.5 1.0
S3 F:SF4401 2.3 93.5 1.0
S2 F:SF4401 2.3 93.5 1.0
SG F:CYS287 2.3 96.9 1.0
FE2 F:SF4401 2.7 93.5 1.0
FE1 F:SF4401 2.7 93.5 1.0
FE3 F:SF4401 2.7 93.5 1.0
CA F:CYS287 3.0 96.9 1.0
CB F:CYS287 3.1 96.9 1.0
O F:CYS287 3.6 96.9 1.0
C F:CYS287 3.7 96.9 1.0
S4 F:SF4401 3.9 93.5 1.0
ND2 C:ASN445 3.9 105.2 1.0
CB F:CYS290 4.0 95.5 1.0
N F:CYS287 4.1 96.9 1.0
CE F:MET310 4.3 98.0 1.0
SG F:CYS307 4.3 97.3 1.0
SG F:CYS290 4.6 95.5 1.0
CZ F:PHE293 4.6 91.2 1.0
CE1 F:PHE293 4.6 91.2 1.0
SG F:CYS296 4.8 89.3 1.0
N F:GLY288 4.9 98.4 1.0
CE2 F:PHE293 4.9 91.2 1.0
CD1 F:PHE293 5.0 91.2 1.0

Reference:

S.Z.Shah, T.N.Perry, A.Graziadei, V.Cecatiello, T.Kaliyappan, A.D.Misiaszek, C.W.Muller, E.P.Ramsay, A.Vannini. Structural Insights Into Distinct Mechanisms of Rna Polymerase II and III Recruitment to Snrna Promoters. Nat Commun V. 16 141 2025.
ISSN: ESSN 2041-1723
PubMed: 39747245
DOI: 10.1038/S41467-024-55553-8
Page generated: Sat Feb 8 19:40:53 2025

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