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Iron in PDB 6k43: Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor

Enzymatic activity of Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor

All present enzymatic activity of Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor:
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-Bacterioferritin-Form-I From Streptomyces Coelicolor (pdb code 6k43). 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-Bacterioferritin-Form-I From Streptomyces Coelicolor, PDB code: 6k43:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 36 in 6k43

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Iron binding site 1 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:113.8
occ:1.00
 OE2 A:GLU18 2.1 84.1 1.0
OE2 A:GLU51 2.1 85.8 1.0
OE1 A:GLU51 2.1 85.8 1.0
OE1 A:GLU18 2.1 84.1 1.0
OE2 A:GLU127 2.2 93.1 1.0
CD A:GLU51 2.4 85.8 1.0
CD A:GLU18 2.4 84.1 1.0
ND1 A:HIS54 2.4 86.7 1.0
CE1 A:HIS54 3.2 86.7 1.0
CD A:GLU127 3.4 93.1 1.0
CG A:HIS54 3.5 86.7 1.0
CG A:GLU51 3.8 85.8 1.0
CB A:HIS54 3.9 86.7 1.0
CG A:GLU18 3.9 84.1 1.0
OE1 A:GLU127 4.1 93.1 1.0
NE2 A:HIS54 4.4 86.7 1.0
CG A:GLU127 4.5 93.1 1.0
CD2 A:HIS54 4.5 86.7 1.0
CA A:GLU51 4.6 85.8 1.0
CB A:GLU51 4.6 85.8 1.0
CB A:GLU18 4.8 84.1 1.0
CG2 A:ILE123 5.0 87.0 1.0

Iron binding site 2 out of 36 in 6k43

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Iron binding site 2 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe202

b:87.1
occ:1.00
 FE A:HEM202 0.0 87.1 1.0
NC A:HEM202 2.0 87.1 1.0
NA A:HEM202 2.0 87.1 1.0
NB A:HEM202 2.0 87.1 1.0
ND A:HEM202 2.0 87.1 1.0
SD B:MET52 2.5 87.0 1.0
SD A:MET52 2.6 84.9 1.0
C1A A:HEM202 3.0 87.1 1.0
CE A:MET52 3.0 84.9 1.0
C4B A:HEM202 3.0 87.1 1.0
C4A A:HEM202 3.0 87.1 1.0
C1B A:HEM202 3.0 87.1 1.0
C1C A:HEM202 3.0 87.1 1.0
C4D A:HEM202 3.0 87.1 1.0
C4C A:HEM202 3.0 87.1 1.0
C1D A:HEM202 3.1 87.1 1.0
CE B:MET52 3.4 87.0 1.0
CHC A:HEM202 3.4 87.1 1.0
CHB A:HEM202 3.4 87.1 1.0
CHA A:HEM202 3.4 87.1 1.0
CHD A:HEM202 3.4 87.1 1.0
C2A A:HEM202 4.2 87.1 1.0
C3A A:HEM202 4.2 87.1 1.0
C2B A:HEM202 4.2 87.1 1.0
C3B A:HEM202 4.2 87.1 1.0
CG B:MET52 4.2 87.0 1.0
C2C A:HEM202 4.2 87.1 1.0
C3C A:HEM202 4.2 87.1 1.0
HHC A:HEM202 4.2 87.1 1.0
C3D A:HEM202 4.2 87.1 1.0
C2D A:HEM202 4.3 87.1 1.0
HHA A:HEM202 4.3 87.1 1.0
HHB A:HEM202 4.4 87.1 1.0
CG A:MET52 4.4 84.9 1.0
HHD A:HEM202 4.4 87.1 1.0

Iron binding site 3 out of 36 in 6k43

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Iron binding site 3 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe200

b:114.9
occ:1.00
 OE1 B:GLU18 2.1 85.0 1.0
OE2 B:GLU51 2.1 88.2 1.0
OE1 B:GLU51 2.1 88.2 1.0
OE2 B:GLU18 2.1 85.0 1.0
OE1 B:GLU127 2.2 91.5 1.0
CD B:GLU51 2.3 88.2 1.0
CD B:GLU18 2.4 85.0 1.0
ND1 B:HIS54 2.4 87.8 1.0
CE1 B:HIS54 3.2 87.8 1.0
CD B:GLU127 3.4 91.5 1.0
CG B:HIS54 3.5 87.8 1.0
CG B:GLU51 3.8 88.2 1.0
CB B:HIS54 3.9 87.8 1.0
CG B:GLU18 3.9 85.0 1.0
OE2 B:GLU127 4.1 91.5 1.0
NE2 B:HIS54 4.4 87.8 1.0
CG B:GLU127 4.4 91.5 1.0
CA B:GLU51 4.5 88.2 1.0
CD2 B:HIS54 4.5 87.8 1.0
CB B:GLU51 4.6 88.2 1.0
CB B:GLU18 4.8 85.0 1.0
CG2 B:ILE123 5.0 85.7 1.0

Iron binding site 4 out of 36 in 6k43

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Iron binding site 4 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe201

b:114.1
occ:1.00
 OE2 C:GLU51 2.1 88.6 1.0
OE1 C:GLU51 2.1 88.6 1.0
OE2 C:GLU18 2.1 86.1 1.0
OE1 C:GLU18 2.3 86.1 1.0
OE2 C:GLU127 2.3 94.0 1.0
OE1 C:GLU127 2.3 94.0 1.0
CD C:GLU51 2.3 88.6 1.0
CD C:GLU127 2.4 94.0 1.0
CD C:GLU18 2.5 86.1 1.0
ND1 C:HIS54 2.6 88.3 1.0
CE1 C:HIS54 3.2 88.3 1.0
CG C:GLU127 3.7 94.0 1.0
CG C:HIS54 3.8 88.3 1.0
CG C:GLU51 3.8 88.6 1.0
CG C:GLU18 4.0 86.1 1.0
CB C:HIS54 4.3 88.3 1.0
NE2 C:HIS54 4.4 88.3 1.0
CB C:GLU51 4.7 88.6 1.0
CD2 C:HIS54 4.8 88.3 1.0
CA C:GLU51 4.8 88.6 1.0
CB C:GLU18 4.9 86.1 1.0
CG2 C:ILE123 4.9 88.4 1.0

Iron binding site 5 out of 36 in 6k43

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Iron binding site 5 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe202

b:90.2
occ:1.00
 FE C:HEM202 0.0 90.2 1.0
NB C:HEM202 2.0 90.2 1.0
NA C:HEM202 2.0 90.2 1.0
ND C:HEM202 2.0 90.2 1.0
NC C:HEM202 2.1 90.2 1.0
CE C:MET52 2.1 87.9 1.0
SD C:MET52 2.8 87.9 1.0
C1C C:HEM202 2.9 90.2 1.0
C1A C:HEM202 3.0 90.2 1.0
C4C C:HEM202 3.0 90.2 1.0
C4B C:HEM202 3.0 90.2 1.0
C4A C:HEM202 3.0 90.2 1.0
C4D C:HEM202 3.0 90.2 1.0
C1B C:HEM202 3.1 90.2 1.0
C1D C:HEM202 3.1 90.2 1.0
CHC C:HEM202 3.3 90.2 1.0
CHA C:HEM202 3.4 90.2 1.0
CHD C:HEM202 3.4 90.2 1.0
CHB C:HEM202 3.5 90.2 1.0
SD D:MET52 3.5 85.0 1.0
CE D:MET52 4.1 85.0 1.0
C2C C:HEM202 4.1 90.2 1.0
C3C C:HEM202 4.1 90.2 1.0
HHD C:HEM202 4.2 90.2 1.0
C2A C:HEM202 4.2 90.2 1.0
C3A C:HEM202 4.2 90.2 1.0
C3B C:HEM202 4.2 90.2 1.0
C2B C:HEM202 4.2 90.2 1.0
C3D C:HEM202 4.3 90.2 1.0
C2D C:HEM202 4.3 90.2 1.0
HHC C:HEM202 4.3 90.2 1.0
HHA C:HEM202 4.3 90.2 1.0
HHB C:HEM202 4.4 90.2 1.0
CG C:MET52 4.5 87.9 1.0
CG D:MET52 5.0 85.0 1.0

Iron binding site 6 out of 36 in 6k43

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Iron binding site 6 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:111.6
occ:1.00
 OE2 D:GLU18 2.1 84.7 1.0
OE2 D:GLU51 2.1 87.4 1.0
OE1 D:GLU51 2.1 87.4 1.0
OE1 D:GLU18 2.1 84.7 1.0
OE2 D:GLU127 2.2 90.8 1.0
CD D:GLU51 2.3 87.4 1.0
CD D:GLU18 2.4 84.7 1.0
ND1 D:HIS54 2.4 86.8 1.0
CE1 D:HIS54 3.2 86.8 1.0
CD D:GLU127 3.4 90.8 1.0
CG D:HIS54 3.5 86.8 1.0
CG D:GLU51 3.8 87.4 1.0
CB D:HIS54 3.9 86.8 1.0
CG D:GLU18 3.9 84.7 1.0
OE1 D:GLU127 4.1 90.8 1.0
NE2 D:HIS54 4.4 86.8 1.0
CG D:GLU127 4.5 90.8 1.0
CD2 D:HIS54 4.5 86.8 1.0
CA D:GLU51 4.6 87.4 1.0
CB D:GLU51 4.6 87.4 1.0
CB D:GLU18 4.8 84.7 1.0
CG2 D:ILE123 5.0 85.1 1.0

Iron binding site 7 out of 36 in 6k43

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Iron binding site 7 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe201

b:112.6
occ:1.00
 OE1 F:GLU51 2.1 87.4 1.0
OE2 F:GLU18 2.1 83.6 1.0
OE2 F:GLU51 2.1 87.4 1.0
OE1 F:GLU18 2.1 83.6 1.0
OE2 F:GLU127 2.2 92.9 1.0
CD F:GLU51 2.3 87.4 1.0
CD F:GLU18 2.4 83.6 1.0
ND1 F:HIS54 2.4 87.5 1.0
CE1 F:HIS54 3.2 87.5 1.0
CD F:GLU127 3.4 92.9 1.0
CG F:HIS54 3.5 87.5 1.0
CG F:GLU51 3.8 87.4 1.0
CG F:GLU18 3.9 83.6 1.0
CB F:HIS54 3.9 87.5 1.0
OE1 F:GLU127 4.1 92.9 1.0
NE2 F:HIS54 4.4 87.5 1.0
CG F:GLU127 4.5 92.9 1.0
CD2 F:HIS54 4.6 87.5 1.0
CA F:GLU51 4.6 87.4 1.0
CB F:GLU51 4.6 87.4 1.0
CB F:GLU18 4.8 83.6 1.0
CG2 F:ILE123 5.0 86.9 1.0

Iron binding site 8 out of 36 in 6k43

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Iron binding site 8 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe202

b:87.4
occ:1.00
 FE F:HEM202 0.0 87.4 1.0
ND F:HEM202 2.0 87.4 1.0
NB F:HEM202 2.0 87.4 1.0
NC F:HEM202 2.0 87.4 1.0
NA F:HEM202 2.0 87.4 1.0
CE F:MET52 2.7 86.0 1.0
SD F:MET52 2.8 86.0 1.0
SD E:MET52 2.9 84.0 1.0
CE E:MET52 2.9 84.0 1.0
C1D F:HEM202 3.0 87.4 1.0
C4D F:HEM202 3.0 87.4 1.0
C1B F:HEM202 3.0 87.4 1.0
C4A F:HEM202 3.0 87.4 1.0
C4C F:HEM202 3.0 87.4 1.0
C4B F:HEM202 3.0 87.4 1.0
C1C F:HEM202 3.1 87.4 1.0
C1A F:HEM202 3.1 87.4 1.0
CHD F:HEM202 3.4 87.4 1.0
CHB F:HEM202 3.4 87.4 1.0
CHA F:HEM202 3.4 87.4 1.0
CHC F:HEM202 3.4 87.4 1.0
CG F:MET52 4.0 86.0 1.0
C2D F:HEM202 4.1 87.4 1.0
C3D F:HEM202 4.2 87.4 1.0
CG E:MET52 4.2 84.0 1.0
C3A F:HEM202 4.2 87.4 1.0
C2B F:HEM202 4.2 87.4 1.0
C3B F:HEM202 4.2 87.4 1.0
C3C F:HEM202 4.2 87.4 1.0
C2A F:HEM202 4.3 87.4 1.0
C2C F:HEM202 4.3 87.4 1.0
HHD F:HEM202 4.3 87.4 1.0
HHB F:HEM202 4.4 87.4 1.0
HHA F:HEM202 4.4 87.4 1.0
HHC F:HEM202 4.4 87.4 1.0

Iron binding site 9 out of 36 in 6k43

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Iron binding site 9 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:113.2
occ:1.00
 OE2 E:GLU18 2.1 84.7 1.0
OE2 E:GLU51 2.1 85.9 1.0
OE1 E:GLU51 2.1 85.9 1.0
OE1 E:GLU18 2.1 84.7 1.0
OE2 E:GLU127 2.2 90.4 1.0
CD E:GLU51 2.3 85.9 1.0
ND1 E:HIS54 2.4 86.0 1.0
CD E:GLU18 2.4 84.7 1.0
CE1 E:HIS54 3.2 86.0 1.0
CD E:GLU127 3.4 90.4 1.0
CG E:HIS54 3.5 86.0 1.0
CG E:GLU51 3.8 85.9 1.0
CB E:HIS54 3.9 86.0 1.0
CG E:GLU18 3.9 84.7 1.0
OE1 E:GLU127 4.1 90.4 1.0
NE2 E:HIS54 4.4 86.0 1.0
CG E:GLU127 4.4 90.4 1.0
CD2 E:HIS54 4.5 86.0 1.0
CA E:GLU51 4.6 85.9 1.0
CB E:GLU51 4.6 85.9 1.0
CB E:GLU18 4.8 84.7 1.0
CG2 E:ILE123 5.0 85.6 1.0

Iron binding site 10 out of 36 in 6k43

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Iron binding site 10 out of 36 in the Cryo-Em Structure of Holo-Bacterioferritin-Form-I From Streptomyces Coelicolor


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-Bacterioferritin-Form-I From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe201

b:111.4
occ:1.00
 OE2 G:GLU18 2.1 84.0 1.0
OE2 G:GLU51 2.1 86.1 1.0
OE1 G:GLU51 2.1 86.1 1.0
OE1 G:GLU18 2.1 84.0 1.0
OE2 G:GLU127 2.2 90.1 1.0
CD G:GLU51 2.3 86.1 1.0
CD G:GLU18 2.4 84.0 1.0
ND1 G:HIS54 2.4 84.6 1.0
CE1 G:HIS54 3.2 84.6 1.0
CD G:GLU127 3.4 90.1 1.0
CG G:HIS54 3.5 84.6 1.0
CG G:GLU51 3.8 86.1 1.0
CB G:HIS54 3.9 84.6 1.0
CG G:GLU18 3.9 84.0 1.0
OE1 G:GLU127 4.1 90.1 1.0
NE2 G:HIS54 4.4 84.6 1.0
CG G:GLU127 4.5 90.1 1.0
CD2 G:HIS54 4.5 84.6 1.0
CA G:GLU51 4.6 86.1 1.0
CB G:GLU51 4.6 86.1 1.0
CB G:GLU18 4.8 84.0 1.0
CG2 G:ILE123 5.0 85.1 1.0

Reference:

C.Jobichen, J.Sivaraman. Cryo-Em Structure of Apo-Bacterioferritin From Streptomyces Coelicolor To Be Published.
Page generated: Tue Aug 6 23:45:08 2024

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