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Iron in PDB 9iig: Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis

Enzymatic activity of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis

All present enzymatic activity of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis:
1.16.3.1;

Other elements in 9iig:

The structure of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis also contains other interesting chemical elements:

Sodium (Na) 6 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis (pdb code 9iig). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis, PDB code: 9iig:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 9iig

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Iron binding site 1 out of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe201

b:17.4
occ:1.00
FE N:HEM201 0.0 17.4 1.0
NC N:HEM201 2.0 17.4 1.0
NB N:HEM201 2.0 17.4 1.0
ND N:HEM201 2.1 17.4 1.0
NA N:HEM201 2.2 17.4 1.0
SD N:MET52 2.4 55.1 1.0
SD M:MET52 2.7 55.1 1.0
C1C N:HEM201 3.0 17.4 1.0
C4B N:HEM201 3.0 17.4 1.0
C4C N:HEM201 3.1 17.4 1.0
C1B N:HEM201 3.1 17.4 1.0
C1D N:HEM201 3.1 17.4 1.0
C4D N:HEM201 3.1 17.4 1.0
C1A N:HEM201 3.2 17.4 1.0
C4A N:HEM201 3.2 17.4 1.0
CG N:MET52 3.2 36.4 1.0
CE N:MET52 3.3 39.5 1.0
CHC N:HEM201 3.3 17.4 1.0
CHD N:HEM201 3.5 17.4 1.0
CE M:MET52 3.5 39.5 1.0
CHA N:HEM201 3.5 17.4 1.0
CHB N:HEM201 3.5 17.4 1.0
CG M:MET52 3.6 36.4 1.0
C2C N:HEM201 4.2 17.4 1.0
C3B N:HEM201 4.2 17.4 1.0
C3C N:HEM201 4.2 17.4 1.0
CB N:MET52 4.3 31.4 1.0
C2B N:HEM201 4.3 17.4 1.0
C3D N:HEM201 4.3 17.4 1.0
C2D N:HEM201 4.3 17.4 1.0
C2A N:HEM201 4.4 17.4 1.0
C3A N:HEM201 4.4 17.4 1.0
CB M:MET52 4.6 31.4 1.0

Iron binding site 2 out of 6 in 9iig

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Iron binding site 2 out of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Fe201

b:17.4
occ:1.00
FE O:HEM201 0.0 17.4 1.0
NC O:HEM201 2.0 17.4 1.0
NB O:HEM201 2.0 17.4 1.0
ND O:HEM201 2.1 17.4 1.0
NA O:HEM201 2.2 17.4 1.0
SD O:MET52 2.5 55.1 1.0
SD P:MET52 2.6 55.1 1.0
C1C O:HEM201 3.0 17.4 1.0
C4B O:HEM201 3.0 17.4 1.0
C4C O:HEM201 3.1 17.4 1.0
C1B O:HEM201 3.1 17.4 1.0
C1D O:HEM201 3.1 17.4 1.0
C4D O:HEM201 3.1 17.4 1.0
C1A O:HEM201 3.2 17.4 1.0
C4A O:HEM201 3.2 17.4 1.0
CE O:MET52 3.2 39.5 1.0
CG O:MET52 3.2 36.4 1.0
CHC O:HEM201 3.3 17.4 1.0
CE P:MET52 3.4 39.5 1.0
CG P:MET52 3.4 36.4 1.0
CHD O:HEM201 3.5 17.4 1.0
CHA O:HEM201 3.5 17.4 1.0
CHB O:HEM201 3.5 17.4 1.0
C2C O:HEM201 4.2 17.4 1.0
C3B O:HEM201 4.2 17.4 1.0
C3C O:HEM201 4.2 17.4 1.0
C2B O:HEM201 4.3 17.4 1.0
C3D O:HEM201 4.3 17.4 1.0
C2D O:HEM201 4.3 17.4 1.0
CB O:MET52 4.4 31.4 1.0
C2A O:HEM201 4.4 17.4 1.0
C3A O:HEM201 4.4 17.4 1.0
CB P:MET52 4.5 31.4 1.0

Iron binding site 3 out of 6 in 9iig

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Iron binding site 3 out of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe atom residue distance (Å) B Occ
Q:Fe201

b:17.4
occ:1.00
FE Q:HEM201 0.0 17.4 1.0
NC Q:HEM201 2.0 17.4 1.0
NB Q:HEM201 2.0 17.4 1.0
ND Q:HEM201 2.1 17.4 1.0
NA Q:HEM201 2.2 17.4 1.0
SD R:MET52 2.5 55.1 1.0
SD Q:MET52 2.5 55.1 1.0
C1C Q:HEM201 3.0 17.4 1.0
C4B Q:HEM201 3.0 17.4 1.0
C4C Q:HEM201 3.1 17.4 1.0
C1B Q:HEM201 3.1 17.4 1.0
C1D Q:HEM201 3.1 17.4 1.0
C4D Q:HEM201 3.1 17.4 1.0
C1A Q:HEM201 3.2 17.4 1.0
C4A Q:HEM201 3.2 17.4 1.0
CE R:MET52 3.2 39.5 1.0
CG Q:MET52 3.3 36.4 1.0
CHC Q:HEM201 3.3 17.4 1.0
CG R:MET52 3.4 36.4 1.0
CHD Q:HEM201 3.5 17.4 1.0
CE Q:MET52 3.5 39.5 1.0
CHA Q:HEM201 3.5 17.4 1.0
CHB Q:HEM201 3.5 17.4 1.0
C2C Q:HEM201 4.2 17.4 1.0
C3B Q:HEM201 4.2 17.4 1.0
C3C Q:HEM201 4.2 17.4 1.0
C2B Q:HEM201 4.3 17.4 1.0
CB Q:MET52 4.3 31.4 1.0
C3D Q:HEM201 4.3 17.4 1.0
C2D Q:HEM201 4.3 17.4 1.0
C2A Q:HEM201 4.4 17.4 1.0
C3A Q:HEM201 4.4 17.4 1.0
CB R:MET52 4.4 31.4 1.0

Iron binding site 4 out of 6 in 9iig

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Iron binding site 4 out of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Fe201

b:17.4
occ:1.00
FE S:HEM201 0.0 17.4 1.0
NC S:HEM201 2.0 17.4 1.0
NB S:HEM201 2.0 17.4 1.0
ND S:HEM201 2.1 17.4 1.0
NA S:HEM201 2.2 17.4 1.0
SD S:MET52 2.4 55.1 1.0
SD T:MET52 2.7 55.1 1.0
C1C S:HEM201 3.0 17.4 1.0
C4B S:HEM201 3.0 17.4 1.0
C4C S:HEM201 3.1 17.4 1.0
C1B S:HEM201 3.1 17.4 1.0
C1D S:HEM201 3.1 17.4 1.0
C4D S:HEM201 3.1 17.4 1.0
C1A S:HEM201 3.2 17.4 1.0
C4A S:HEM201 3.2 17.4 1.0
CG S:MET52 3.2 36.4 1.0
CE S:MET52 3.3 39.5 1.0
CHC S:HEM201 3.3 17.4 1.0
CE T:MET52 3.4 39.5 1.0
CHD S:HEM201 3.5 17.4 1.0
CHA S:HEM201 3.5 17.4 1.0
CG T:MET52 3.5 36.4 1.0
CHB S:HEM201 3.5 17.4 1.0
C2C S:HEM201 4.2 17.4 1.0
CB S:MET52 4.2 31.4 1.0
C3B S:HEM201 4.2 17.4 1.0
C3C S:HEM201 4.2 17.4 1.0
C2B S:HEM201 4.3 17.4 1.0
C2D S:HEM201 4.3 17.4 1.0
C3D S:HEM201 4.3 17.4 1.0
C2A S:HEM201 4.4 17.4 1.0
C3A S:HEM201 4.4 17.4 1.0
CB T:MET52 4.6 31.4 1.0

Iron binding site 5 out of 6 in 9iig

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Iron binding site 5 out of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe atom residue distance (Å) B Occ
U:Fe201

b:17.4
occ:1.00
FE U:HEM201 0.0 17.4 1.0
NC U:HEM201 2.0 17.4 1.0
NB U:HEM201 2.0 17.4 1.0
ND U:HEM201 2.1 17.4 1.0
NA U:HEM201 2.2 17.4 1.0
SD U:MET52 2.4 55.1 1.0
SD V:MET52 2.6 55.1 1.0
C1C U:HEM201 3.0 17.4 1.0
C4B U:HEM201 3.0 17.4 1.0
C4C U:HEM201 3.1 17.4 1.0
C1B U:HEM201 3.1 17.4 1.0
C1D U:HEM201 3.1 17.4 1.0
C4D U:HEM201 3.1 17.4 1.0
C1A U:HEM201 3.2 17.4 1.0
C4A U:HEM201 3.2 17.4 1.0
CG U:MET52 3.2 36.4 1.0
CE U:MET52 3.2 39.5 1.0
CHC U:HEM201 3.3 17.4 1.0
CG V:MET52 3.4 36.4 1.0
CE V:MET52 3.4 39.5 1.0
CHD U:HEM201 3.5 17.4 1.0
CHA U:HEM201 3.5 17.4 1.0
CHB U:HEM201 3.5 17.4 1.0
C2C U:HEM201 4.2 17.4 1.0
C3B U:HEM201 4.2 17.4 1.0
C3C U:HEM201 4.2 17.4 1.0
CB U:MET52 4.3 31.4 1.0
C2B U:HEM201 4.3 17.4 1.0
C3D U:HEM201 4.3 17.4 1.0
C2D U:HEM201 4.3 17.4 1.0
C2A U:HEM201 4.4 17.4 1.0
C3A U:HEM201 4.4 17.4 1.0
CB V:MET52 4.5 31.4 1.0

Iron binding site 6 out of 6 in 9iig

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Iron binding site 6 out of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Fe201

b:17.4
occ:1.00
FE X:HEM201 0.0 17.4 1.0
NC X:HEM201 2.0 17.4 1.0
NB X:HEM201 2.0 17.4 1.0
ND X:HEM201 2.1 17.4 1.0
NA X:HEM201 2.2 17.4 1.0
SD X:MET52 2.4 55.1 1.0
SD W:MET52 2.6 55.1 1.0
C1C X:HEM201 3.0 17.4 1.0
C4B X:HEM201 3.0 17.4 1.0
C4C X:HEM201 3.1 17.4 1.0
C1B X:HEM201 3.1 17.4 1.0
CE X:MET52 3.1 39.5 1.0
C1D X:HEM201 3.1 17.4 1.0
C4D X:HEM201 3.1 17.4 1.0
C1A X:HEM201 3.2 17.4 1.0
C4A X:HEM201 3.2 17.4 1.0
CG W:MET52 3.3 36.4 1.0
CHC X:HEM201 3.3 17.4 1.0
CG X:MET52 3.4 36.4 1.0
CE W:MET52 3.4 39.5 1.0
CHD X:HEM201 3.5 17.4 1.0
CHA X:HEM201 3.5 17.4 1.0
CHB X:HEM201 3.5 17.4 1.0
C2C X:HEM201 4.2 17.4 1.0
C3B X:HEM201 4.2 17.4 1.0
C3C X:HEM201 4.2 17.4 1.0
C2B X:HEM201 4.3 17.4 1.0
C3D X:HEM201 4.3 17.4 1.0
C2D X:HEM201 4.3 17.4 1.0
C2A X:HEM201 4.4 17.4 1.0
CB W:MET52 4.4 31.4 1.0
C3A X:HEM201 4.4 17.4 1.0
CB X:MET52 4.5 31.4 1.0

Reference:

Y.Li, W.Wang, W.Wang, X.Zhang, J.Chen, H.Gao. Unveiling Structural Heterogeneity and Evolutionary Adaptations of Heteromultimeric Bacterioferritin Nanocages. Adv Sci 09957 2025.
ISSN: ESSN 2198-3844
PubMed: 40167232
DOI: 10.1002/ADVS.202409957
Page generated: Fri Aug 8 06:48:49 2025

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