Atomistry » Iron » PDB 8irg-8ji2 » 8jax
Atomistry »
  Iron »
    PDB 8irg-8ji2 »
      8jax »

Iron in PDB 8jax: Cryo-Em Structure of Holo Form of Scbfr with O Symmetry

Enzymatic activity of Cryo-Em Structure of Holo Form of Scbfr with O Symmetry

All present enzymatic activity of Cryo-Em Structure of Holo Form of Scbfr with O Symmetry:
1.16.3.1;

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 36;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry (pdb code 8jax). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 36 binding sites of Iron where determined in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry, PDB code: 8jax:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 1 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


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 Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:167.3
occ:1.00
OE1 A:GLU127 2.0 107.3 1.0
OE1 A:GLU51 2.0 96.9 1.0
OE2 A:GLU51 2.1 92.4 1.0
OE2 A:GLU127 2.2 102.7 1.0
OE2 A:GLU18 2.2 92.7 1.0
CD A:GLU127 2.3 101.1 1.0
OE1 A:GLU18 2.3 92.9 1.0
CD A:GLU51 2.3 94.1 1.0
CD A:GLU18 2.6 93.0 1.0
OE1 A:GLU94 2.6 112.4 1.0
ND1 A:HIS54 3.1 83.2 1.0
CE1 A:HIS54 3.4 85.8 1.0
CD A:GLU94 3.7 109.4 1.0
CG A:GLU127 3.7 96.3 1.0
CG A:GLU51 3.8 88.0 1.0
OE2 A:GLU94 4.0 108.6 1.0
CG A:GLU18 4.1 90.0 1.0
CG A:HIS54 4.4 80.8 1.0
CB A:GLU51 4.7 80.5 1.0
NE2 A:HIS54 4.7 80.9 1.0
CB A:GLU127 4.7 90.3 1.0

Iron binding site 2 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 2 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


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 Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:69.3
occ:0.04
FE B:HEM201 0.0 69.3 0.0
CE B:MET52 1.6 78.3 1.0
NB B:HEM201 2.0 70.4 0.0
ND B:HEM201 2.0 70.5 0.0
NC B:HEM201 2.1 70.6 0.0
NA B:HEM201 2.1 70.7 0.0
SD A:MET52 3.0 105.2 1.0
C4B B:HEM201 3.0 70.6 0.0
C4D B:HEM201 3.0 70.4 0.0
C1A B:HEM201 3.0 70.7 0.0
SD B:MET52 3.0 104.9 1.0
C1C B:HEM201 3.1 70.5 0.0
C1D B:HEM201 3.1 70.5 0.0
C1B B:HEM201 3.1 70.5 0.0
C4A B:HEM201 3.1 70.7 0.0
C4C B:HEM201 3.1 70.9 0.0
CHC B:HEM201 3.3 70.7 0.0
CHA B:HEM201 3.4 70.6 0.0
CHD B:HEM201 3.5 70.7 0.0
CHB B:HEM201 3.5 70.8 0.0
CE A:MET52 3.5 81.3 1.0
C2A B:HEM201 4.2 70.5 0.0
C3B B:HEM201 4.2 69.9 0.0
C3D B:HEM201 4.2 70.4 0.0
C3A B:HEM201 4.3 70.4 0.0
C2B B:HEM201 4.3 70.1 0.0
C2D B:HEM201 4.3 70.5 0.0
C2C B:HEM201 4.3 70.2 0.0
C3C B:HEM201 4.3 70.5 0.0
CG B:MET52 4.3 83.9 1.0
CG A:MET52 4.3 85.0 1.0
CE1 B:PHE49 4.5 77.2 1.0
CD1 B:PHE49 4.9 73.0 1.0

Iron binding site 3 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 3 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


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 Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe202

b:174.4
occ:1.00
OE2 B:GLU127 2.0 100.9 1.0
OE1 B:GLU51 2.0 93.7 1.0
OE2 B:GLU51 2.1 97.1 1.0
OE1 B:GLU127 2.1 104.0 1.0
OE2 B:GLU94 2.1 112.3 1.0
OE2 B:GLU18 2.2 100.6 1.0
CD B:GLU127 2.3 100.8 1.0
CD B:GLU51 2.3 95.1 1.0
OE1 B:GLU18 2.3 91.5 1.0
OE1 B:GLU94 2.6 112.3 1.0
CD B:GLU18 2.6 96.5 1.0
CD B:GLU94 2.7 111.8 1.0
ND1 B:HIS54 3.1 79.7 1.0
CE1 B:HIS54 3.3 80.8 1.0
CG B:GLU127 3.8 91.4 1.0
CG B:GLU51 3.8 89.5 1.0
CG B:GLU18 4.1 90.8 1.0
CG B:GLU94 4.2 107.0 1.0
CG B:HIS54 4.4 78.2 1.0
NE2 B:HIS54 4.6 79.0 1.0
CB B:GLU51 4.6 79.0 1.0
CB B:GLU127 4.7 85.1 1.0
CA B:GLU51 4.9 81.1 1.0

Iron binding site 4 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 4 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


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 Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:170.7
occ:1.00
OE2 C:GLU127 2.1 113.4 1.0
OE1 C:GLU51 2.1 106.2 1.0
OE2 C:GLU51 2.1 100.5 1.0
OE2 C:GLU18 2.1 99.9 1.0
OE1 C:GLU18 2.2 104.8 1.0
OE1 C:GLU127 2.3 107.9 1.0
CD C:GLU51 2.4 100.3 1.0
CD C:GLU127 2.4 109.7 1.0
ND1 C:HIS54 2.4 85.8 1.0
CD C:GLU18 2.5 100.3 1.0
CE1 C:HIS54 3.1 87.3 1.0
CG C:HIS54 3.6 83.7 1.0
CG C:GLU127 3.7 101.5 1.0
CG C:GLU51 3.9 93.2 1.0
CG C:GLU18 4.0 95.0 1.0
CB C:HIS54 4.2 80.8 1.0
NE2 C:HIS54 4.3 87.5 1.0
CG2 C:ILE123 4.5 91.4 1.0
CD2 C:HIS54 4.6 85.4 1.0
CB C:GLU51 4.7 84.5 1.0
CA C:GLU51 4.7 86.8 1.0
CB C:GLU18 4.9 83.5 1.0
CB C:GLU127 4.9 93.0 1.0

Iron binding site 5 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 5 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


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 Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:86.8
occ:0.00
FE D:HEM201 0.0 86.8 0.0
CE D:MET52 1.8 89.0 1.0
CE C:MET52 1.9 89.2 1.0
NC D:HEM201 2.0 86.8 0.0
NA D:HEM201 2.1 86.8 0.0
ND D:HEM201 2.1 86.8 0.0
NB D:HEM201 2.1 86.8 0.0
SD C:MET52 2.9 110.6 1.0
C4A D:HEM201 3.0 86.7 0.0
C1A D:HEM201 3.0 86.7 0.0
C4C D:HEM201 3.0 86.8 0.0
C1C D:HEM201 3.0 86.8 0.0
C1B D:HEM201 3.1 86.6 0.0
C4D D:HEM201 3.1 86.8 0.0
C1D D:HEM201 3.1 86.8 0.0
C4B D:HEM201 3.2 86.7 0.0
CHA D:HEM201 3.4 86.7 0.0
CHB D:HEM201 3.4 86.6 0.0
CHD D:HEM201 3.4 86.8 0.0
SD D:MET52 3.4 108.6 1.0
CHC D:HEM201 3.5 86.7 0.0
CG D:MET52 4.0 90.2 1.0
C3A D:HEM201 4.0 86.7 0.0
C2A D:HEM201 4.0 86.7 0.0
C3C D:HEM201 4.1 86.8 0.0
C2C D:HEM201 4.1 86.7 0.0
CG C:MET52 4.2 87.5 1.0
C2D D:HEM201 4.3 86.7 0.0
C3D D:HEM201 4.3 86.7 0.0
C2B D:HEM201 4.3 86.5 0.0
C3B D:HEM201 4.4 86.7 0.0
CE1 C:PHE49 4.8 82.7 1.0

Iron binding site 6 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 6 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


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 Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe202

b:173.6
occ:1.00
OE1 D:GLU51 2.0 104.6 1.0
OE2 D:GLU51 2.1 108.3 1.0
OE2 D:GLU127 2.2 117.8 1.0
OE1 D:GLU18 2.2 99.9 1.0
OE2 D:GLU18 2.2 105.1 1.0
OE1 D:GLU127 2.2 117.9 1.0
CD D:GLU51 2.3 104.2 1.0
CD D:GLU127 2.3 114.3 1.0
CD D:GLU18 2.5 101.6 1.0
ND1 D:HIS54 2.6 83.5 1.0
CE1 D:HIS54 3.3 86.5 1.0
CG D:GLU127 3.6 104.7 1.0
CG D:GLU51 3.8 97.3 1.0
CG D:HIS54 3.8 84.4 1.0
CG D:GLU18 4.0 95.0 1.0
CG2 D:ILE123 4.2 85.8 1.0
CB D:HIS54 4.2 81.9 1.0
CB D:GLU51 4.4 88.2 1.0
CA D:GLU51 4.5 92.1 1.0
NE2 D:HIS54 4.5 88.8 1.0
CD2 D:HIS54 4.8 85.7 1.0
CB D:GLU127 4.9 97.0 1.0

Iron binding site 7 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 7 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Cryo-Em Structure of Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe201

b:194.2
occ:1.00
CD F:GLU127 2.0 112.7 1.0
OE1 F:GLU127 2.0 115.1 1.0
OE1 F:GLU94 2.1 121.3 1.0
OE2 F:GLU51 2.1 102.7 1.0
OE1 F:GLU51 2.1 106.5 1.0
OE2 F:GLU18 2.2 105.1 1.0
OE2 F:GLU127 2.3 114.5 1.0
OE1 F:GLU18 2.3 105.4 1.0
CD F:GLU51 2.4 102.7 1.0
CD F:GLU18 2.6 102.7 1.0
OE2 F:GLU94 2.6 115.0 1.0
CD F:GLU94 2.7 119.4 1.0
CG F:GLU127 2.8 106.9 1.0
ND1 F:HIS54 3.1 94.0 1.0
CE1 F:HIS54 3.4 95.0 1.0
CG F:GLU51 3.8 96.8 1.0
CG F:GLU18 4.1 97.5 1.0
CB F:GLU127 4.1 97.6 1.0
CG F:GLU94 4.2 115.1 1.0
CG F:HIS54 4.4 88.8 1.0
NE2 F:HIS54 4.7 91.7 1.0
CB F:GLU51 4.8 89.7 1.0

Iron binding site 8 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 8 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Cryo-Em Structure of Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe202

b:87.2
occ:0.00
FE F:HEM202 0.0 87.2 0.0
ND F:HEM202 2.1 87.1 0.0
NC F:HEM202 2.1 87.1 0.0
NA F:HEM202 2.1 87.4 0.0
NB F:HEM202 2.1 87.1 0.0
CE E:MET52 2.1 84.2 1.0
CE F:MET52 2.3 90.0 1.0
C4A F:HEM202 3.0 87.3 0.0
C1A F:HEM202 3.0 87.2 0.0
C4D F:HEM202 3.0 87.1 0.0
C1C F:HEM202 3.0 87.0 0.0
C1D F:HEM202 3.1 87.0 0.0
C1B F:HEM202 3.1 87.2 0.0
C4C F:HEM202 3.1 86.8 0.0
C4B F:HEM202 3.1 87.0 0.0
CHA F:HEM202 3.4 87.2 0.0
CHC F:HEM202 3.4 87.0 0.0
CHB F:HEM202 3.4 87.2 0.0
CHD F:HEM202 3.5 86.8 0.0
SD E:MET52 3.6 105.3 1.0
SD F:MET52 4.0 125.0 1.0
C3A F:HEM202 4.1 87.2 0.0
C2A F:HEM202 4.1 87.2 0.0
C3D F:HEM202 4.2 87.0 0.0
C2D F:HEM202 4.3 87.0 0.0
C2C F:HEM202 4.3 87.0 0.0
C3C F:HEM202 4.3 86.8 0.0
C2B F:HEM202 4.3 87.1 0.0
C3B F:HEM202 4.3 87.0 0.0
CG E:MET52 4.4 89.8 1.0
CG F:MET52 4.9 97.5 1.0

Iron binding site 9 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 9 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Cryo-Em Structure of Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:173.6
occ:1.00
OE2 E:GLU18 2.1 104.2 1.0
OE1 E:GLU18 2.2 101.0 1.0
OE2 E:GLU127 2.2 113.4 1.0
OE2 E:GLU51 2.2 101.2 1.0
OE1 E:GLU51 2.2 106.9 1.0
OE1 E:GLU127 2.3 113.1 1.0
CD E:GLU127 2.4 110.7 1.0
CD E:GLU18 2.4 101.4 1.0
CD E:GLU51 2.5 102.6 1.0
CG E:GLU127 3.6 102.9 1.0
OE1 E:GLN14 3.9 93.2 1.0
CG E:GLU18 3.9 90.0 1.0
CG E:GLU51 4.1 98.6 1.0
CD2 E:HIS54 4.1 78.7 1.0
CG2 E:ILE123 4.4 86.3 1.0
CG E:HIS54 4.8 81.0 1.0
CB E:GLU18 4.9 78.6 1.0
CD E:GLN14 4.9 84.5 1.0
CB E:GLU127 4.9 92.9 1.0
OE1 E:GLU94 4.9 102.4 1.0
CB E:HIS54 4.9 75.0 1.0
CB E:GLU51 5.0 90.7 1.0

Iron binding site 10 out of 36 in 8jax

Go back to Iron Binding Sites List in 8jax
Iron binding site 10 out of 36 in the Cryo-Em Structure of Holo Form of Scbfr with O Symmetry


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Cryo-Em Structure of Holo Form of Scbfr with O Symmetry within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe201

b:162.1
occ:1.00
OE1 G:GLU127 1.9 105.5 1.0
OE1 G:GLU51 2.0 98.7 1.0
OE2 G:GLU51 2.1 92.9 1.0
OE1 G:GLU18 2.2 93.7 1.0
OE2 G:GLU18 2.2 93.7 1.0
CD G:GLU51 2.3 95.3 1.0
OE2 G:GLU127 2.4 98.2 1.0
CD G:GLU127 2.5 101.6 1.0
ND1 G:HIS54 2.5 79.8 1.0
CD G:GLU18 2.5 92.7 1.0
CE1 G:HIS54 3.1 81.6 1.0
CG G:GLU51 3.7 89.2 1.0
CG G:HIS54 3.7 78.1 1.0
CG G:GLU127 4.0 94.9 1.0
CG G:GLU18 4.0 86.7 1.0
CB G:HIS54 4.3 74.1 1.0
CB G:GLU51 4.3 79.4 1.0
NE2 G:HIS54 4.4 80.5 1.0
CA G:GLU51 4.4 81.9 1.0
CG2 G:ILE123 4.7 80.7 1.0
CD2 G:HIS54 4.7 78.3 1.0

Reference:

C.Jobichen, T.Y.Chong, R.Rattinam, S.Basak, M.Srinivasan, Y.K.Choong, K.P.Pandey, T.B.Ngoc, J.Shi, J.Angayarkann, J.Sivaraman. Bacterioferritin Nanocage Structures Uncover the Bio-Mineralization Process in Ferritins PNAS Nexus 2023.
ISSN: ESSN 2752-6542
DOI: 10.1093/PNASNEXUS/PGAD235
Page generated: Thu Aug 7 18:36:20 2025

Last articles

Mn in 9LJU
Mn in 9LJW
Mn in 9LJS
Mn in 9LJR
Mn in 9LJT
Mn in 9LJV
Mg in 9UA2
Mg in 9R96
Mg in 9VM1
Mg in 9P01
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy