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Iron in PDB 9fss: Rna Polymerase III Class III Open Mini Pre-Initiation Complex 2 (OC2- Mini)

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

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

Other elements in 9fss:

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

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

Iron Binding Sites:

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

Iron binding site 1 out of 4 in 9fss

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


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 Mini Pre-Initiation Complex 2 (OC2- Mini) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:24.1
occ:1.00
 FE1 F:SF4401 0.0 24.1 1.0
S4 F:SF4401 2.3 24.1 1.0
S2 F:SF4401 2.3 24.1 1.0
S3 F:SF4401 2.3 24.1 1.0
SG F:CYS287 2.3 16.7 1.0
SG F:CYS290 2.4 22.4 1.0
CB F:CYS290 2.5 22.4 1.0
FE3 F:SF4401 2.7 24.1 1.0
FE4 F:SF4401 2.7 24.1 1.0
FE2 F:SF4401 2.8 24.1 1.0
CB F:CYS287 3.6 16.7 1.0
CA F:CYS287 3.6 16.7 1.0
N F:CYS287 3.7 16.7 1.0
C F:PRO286 3.8 23.1 1.0
S1 F:SF4401 3.9 24.1 1.0
O F:PRO286 3.9 23.1 1.0
SG F:CYS307 3.9 24.3 1.0
CA F:CYS290 4.0 22.4 1.0
SG F:CYS296 4.2 19.1 1.0
CB F:PRO286 4.4 23.1 1.0
N F:CYS290 4.6 22.4 1.0
CD2 F:TYR309 4.7 26.3 1.0
CA F:PRO286 4.8 23.1 1.0
CG F:PRO286 4.8 23.1 1.0
CA F:MET310 4.9 23.2 1.0
CB F:MET310 4.9 23.2 1.0
CE F:MET310 4.9 23.2 1.0
CB F:CYS307 4.9 24.3 1.0

Iron binding site 2 out of 4 in 9fss

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


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 Mini Pre-Initiation Complex 2 (OC2- Mini) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:24.1
occ:1.00
 FE2 F:SF4401 0.0 24.1 1.0
S3 F:SF4401 2.3 24.1 1.0
S1 F:SF4401 2.3 24.1 1.0
CE F:MET310 2.3 23.2 1.0
S4 F:SF4401 2.3 24.1 1.0
SD F:MET310 2.4 23.2 1.0
CB F:MET310 2.7 23.2 1.0
FE4 F:SF4401 2.7 24.1 1.0
FE3 F:SF4401 2.8 24.1 1.0
FE1 F:SF4401 2.8 24.1 1.0
CA F:MET310 3.1 23.2 1.0
CG F:MET310 3.2 23.2 1.0
SG F:CYS287 3.9 16.7 1.0
S2 F:SF4401 3.9 24.1 1.0
N F:MET310 4.0 23.2 1.0
CG F:PRO286 4.1 23.1 1.0
SG F:CYS307 4.2 24.3 1.0
CB F:CYS307 4.3 24.3 1.0
C F:MET310 4.3 23.2 1.0
CB F:PRO286 4.4 23.1 1.0
O F:MET310 4.6 23.2 1.0
SG F:CYS296 4.7 19.1 1.0
N F:CYS287 4.8 16.7 1.0
SG F:CYS290 4.9 22.4 1.0
C F:TYR309 5.0 26.3 1.0
CB F:CYS287 5.0 16.7 1.0

Iron binding site 3 out of 4 in 9fss

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


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 Mini Pre-Initiation Complex 2 (OC2- Mini) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:24.1
occ:1.00
 FE3 F:SF4401 0.0 24.1 1.0
S1 F:SF4401 2.3 24.1 1.0
S2 F:SF4401 2.3 24.1 1.0
SG F:CYS307 2.3 24.3 1.0
S4 F:SF4401 2.3 24.1 1.0
SG F:CYS296 2.3 19.1 1.0
CB F:CYS307 2.5 24.3 1.0
FE1 F:SF4401 2.7 24.1 1.0
FE4 F:SF4401 2.7 24.1 1.0
FE2 F:SF4401 2.8 24.1 1.0
SG F:CYS290 3.4 22.4 1.0
CB F:MET310 3.8 23.2 1.0
S3 F:SF4401 3.9 24.1 1.0
CB F:CYS296 3.9 19.1 1.0
SG F:CYS287 4.0 16.7 1.0
CA F:CYS307 4.1 24.3 1.0
O F:SER303 4.5 20.7 1.0
CE F:MET310 4.5 23.2 1.0
CA F:MET310 4.5 23.2 1.0
N F:MET310 4.7 23.2 1.0
CB F:CYS290 4.7 22.4 1.0
CG F:MET310 4.8 23.2 1.0
C F:CYS307 4.8 24.3 1.0
N F:CYS307 4.8 24.3 1.0
SD F:MET310 4.9 23.2 1.0
C F:SER303 4.9 20.7 1.0
CA F:PRO304 4.9 20.1 1.0
N F:PRO304 5.0 20.1 1.0

Iron binding site 4 out of 4 in 9fss

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


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 Mini Pre-Initiation Complex 2 (OC2- Mini) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe401

b:24.1
occ:1.00
 FE4 F:SF4401 0.0 24.1 1.0
SG F:CYS287 2.2 16.7 1.0
S1 F:SF4401 2.3 24.1 1.0
S3 F:SF4401 2.3 24.1 1.0
S2 F:SF4401 2.3 24.1 1.0
FE3 F:SF4401 2.7 24.1 1.0
FE1 F:SF4401 2.7 24.1 1.0
ND2 C:ASN445 2.7 18.0 1.0
FE2 F:SF4401 2.7 24.1 1.0
SG F:CYS296 3.2 19.1 1.0
CG C:ASN445 3.6 18.0 1.0
CE F:MET310 3.6 23.2 1.0
CB F:CYS287 3.7 16.7 1.0
CB C:ASN445 3.8 18.0 1.0
S4 F:SF4401 3.9 24.1 1.0
CB F:CYS296 4.3 19.1 1.0
SG F:CYS290 4.4 22.4 1.0
OD1 C:ASN445 4.6 18.0 1.0
CA F:CYS287 4.7 16.7 1.0
SD F:MET310 4.7 23.2 1.0
CB F:CYS290 4.9 22.4 1.0
N F:CYS287 5.0 16.7 1.0
SG F:CYS307 5.0 24.3 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 19:41:04 2025

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