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Iron in PDB 8yil: Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State

Enzymatic activity of Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State

All present enzymatic activity of Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State:
7.1.1.8;

Other elements in 8yil:

The structure of Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State (pdb code 8yil). 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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State, PDB code: 8yil:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 8yil

Go back to Iron Binding Sites List in 8yil
Iron binding site 1 out of 6 in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State


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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe404

b:42.2
occ:1.00
 FE C:HEM404 0.0 42.2 1.0
NA C:HEM404 2.0 42.2 1.0
NC C:HEM404 2.0 42.2 1.0
NB C:HEM404 2.0 42.2 1.0
ND C:HEM404 2.1 42.2 1.0
NE2 C:HIS183 2.6 39.1 1.0
NE2 C:HIS82 2.7 38.7 1.0
C4A C:HEM404 3.0 42.2 1.0
C4C C:HEM404 3.0 42.2 1.0
C1D C:HEM404 3.0 42.2 1.0
C1A C:HEM404 3.0 42.2 1.0
C1B C:HEM404 3.1 42.2 1.0
C1C C:HEM404 3.1 42.2 1.0
C4B C:HEM404 3.1 42.2 1.0
C4D C:HEM404 3.1 42.2 1.0
CHD C:HEM404 3.4 42.2 1.0
CHB C:HEM404 3.4 42.2 1.0
CHA C:HEM404 3.4 42.2 1.0
CHC C:HEM404 3.5 42.2 1.0
CD2 C:HIS183 3.5 39.1 1.0
CE1 C:HIS183 3.5 39.1 1.0
CD2 C:HIS82 3.5 38.7 1.0
CE1 C:HIS82 3.7 38.7 1.0
C3A C:HEM404 4.2 42.2 1.0
C2A C:HEM404 4.2 42.2 1.0
C3C C:HEM404 4.2 42.2 1.0
C2D C:HEM404 4.2 42.2 1.0
C2C C:HEM404 4.3 42.2 1.0
C2B C:HEM404 4.3 42.2 1.0
C3B C:HEM404 4.3 42.2 1.0
C3D C:HEM404 4.3 42.2 1.0
ND1 C:HIS183 4.6 39.1 1.0
CG C:HIS183 4.6 39.1 1.0
CG C:HIS82 4.7 38.7 1.0
ND1 C:HIS82 4.8 38.7 1.0

Iron binding site 2 out of 6 in 8yil

Go back to Iron Binding Sites List in 8yil
Iron binding site 2 out of 6 in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State


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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe408

b:43.0
occ:1.00
 FE C:HEM408 0.0 43.0 1.0
NB C:HEM408 2.0 43.0 1.0
NA C:HEM408 2.0 43.0 1.0
NC C:HEM408 2.0 43.0 1.0
ND C:HEM408 2.1 43.0 1.0
NE2 C:HIS96 2.7 44.0 1.0
NE2 C:HIS197 2.7 45.4 1.0
C1B C:HEM408 3.0 43.0 1.0
C4B C:HEM408 3.0 43.0 1.0
C1C C:HEM408 3.0 43.0 1.0
C4A C:HEM408 3.0 43.0 1.0
C4C C:HEM408 3.1 43.0 1.0
C1D C:HEM408 3.1 43.0 1.0
C4D C:HEM408 3.1 43.0 1.0
C1A C:HEM408 3.1 43.0 1.0
CD2 C:HIS96 3.1 44.0 1.0
CHB C:HEM408 3.4 43.0 1.0
CHC C:HEM408 3.4 43.0 1.0
CD2 C:HIS197 3.4 45.4 1.0
CHD C:HEM408 3.4 43.0 1.0
CHA C:HEM408 3.4 43.0 1.0
CE1 C:HIS197 3.8 45.4 1.0
CE1 C:HIS96 4.0 44.0 1.0
C2B C:HEM408 4.2 43.0 1.0
C3B C:HEM408 4.2 43.0 1.0
C2C C:HEM408 4.2 43.0 1.0
C3C C:HEM408 4.2 43.0 1.0
C3A C:HEM408 4.3 43.0 1.0
C3D C:HEM408 4.3 43.0 1.0
C2D C:HEM408 4.3 43.0 1.0
C2A C:HEM408 4.3 43.0 1.0
CG C:HIS96 4.4 44.0 1.0
CG C:HIS197 4.6 45.4 1.0
ND1 C:HIS197 4.8 45.4 1.0
ND1 C:HIS96 4.8 44.0 1.0

Iron binding site 3 out of 6 in 8yil

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Iron binding site 3 out of 6 in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State


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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe401

b:53.5
occ:1.00
 FE D:HEM401 0.0 53.5 1.0
NC D:HEM401 2.0 53.5 1.0
ND D:HEM401 2.0 53.5 1.0
NB D:HEM401 2.0 53.5 1.0
NA D:HEM401 2.0 53.5 1.0
NE2 D:HIS105 2.7 53.1 1.0
SD D:MET225 3.0 59.1 1.0
C4C D:HEM401 3.0 53.5 1.0
C4D D:HEM401 3.0 53.5 1.0
C1C D:HEM401 3.0 53.5 1.0
C1D D:HEM401 3.0 53.5 1.0
C1A D:HEM401 3.0 53.5 1.0
C4B D:HEM401 3.0 53.5 1.0
C1B D:HEM401 3.1 53.5 1.0
C4A D:HEM401 3.1 53.5 1.0
CD2 D:HIS105 3.3 53.1 1.0
CHD D:HEM401 3.4 53.5 1.0
CHA D:HEM401 3.4 53.5 1.0
CHC D:HEM401 3.4 53.5 1.0
CHB D:HEM401 3.5 53.5 1.0
CE1 D:HIS105 3.8 53.1 1.0
CG D:MET225 3.9 59.1 1.0
CE D:MET225 4.1 59.1 1.0
C3C D:HEM401 4.2 53.5 1.0
C2C D:HEM401 4.2 53.5 1.0
C3D D:HEM401 4.2 53.5 1.0
C2D D:HEM401 4.3 53.5 1.0
C2A D:HEM401 4.3 53.5 1.0
C3B D:HEM401 4.3 53.5 1.0
C2B D:HEM401 4.3 53.5 1.0
C3A D:HEM401 4.3 53.5 1.0
CB D:MET225 4.5 59.1 1.0
CG D:HIS105 4.6 53.1 1.0
ND1 D:HIS105 4.8 53.1 1.0

Iron binding site 4 out of 6 in 8yil

Go back to Iron Binding Sites List in 8yil
Iron binding site 4 out of 6 in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State


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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe404

b:42.2
occ:1.00
 FE N:HEM404 0.0 42.2 1.0
NA N:HEM404 2.0 42.2 1.0
NB N:HEM404 2.0 42.2 1.0
ND N:HEM404 2.1 42.2 1.0
NC N:HEM404 2.1 42.2 1.0
NE2 N:HIS183 2.6 39.5 1.0
NE2 N:HIS82 2.7 39.5 1.0
C4A N:HEM404 3.0 42.2 1.0
C1D N:HEM404 3.0 42.2 1.0
C1A N:HEM404 3.0 42.2 1.0
C4C N:HEM404 3.1 42.2 1.0
C1B N:HEM404 3.1 42.2 1.0
C1C N:HEM404 3.1 42.2 1.0
C4B N:HEM404 3.1 42.2 1.0
C4D N:HEM404 3.1 42.2 1.0
CHD N:HEM404 3.4 42.2 1.0
CHB N:HEM404 3.4 42.2 1.0
CHA N:HEM404 3.4 42.2 1.0
CHC N:HEM404 3.4 42.2 1.0
CE1 N:HIS183 3.5 39.5 1.0
CD2 N:HIS82 3.5 39.5 1.0
CD2 N:HIS183 3.6 39.5 1.0
CE1 N:HIS82 3.7 39.5 1.0
C3A N:HEM404 4.2 42.2 1.0
C2A N:HEM404 4.2 42.2 1.0
C2D N:HEM404 4.3 42.2 1.0
C3C N:HEM404 4.3 42.2 1.0
C2C N:HEM404 4.3 42.2 1.0
C2B N:HEM404 4.3 42.2 1.0
C3B N:HEM404 4.3 42.2 1.0
C3D N:HEM404 4.3 42.2 1.0
ND1 N:HIS183 4.6 39.5 1.0
CG N:HIS183 4.7 39.5 1.0
CG N:HIS82 4.7 39.5 1.0
ND1 N:HIS82 4.8 39.5 1.0

Iron binding site 5 out of 6 in 8yil

Go back to Iron Binding Sites List in 8yil
Iron binding site 5 out of 6 in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State


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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe405

b:43.7
occ:1.00
 FE N:HEM405 0.0 43.7 1.0
NB N:HEM405 2.0 43.7 1.0
NA N:HEM405 2.0 43.7 1.0
NC N:HEM405 2.0 43.7 1.0
ND N:HEM405 2.1 43.7 1.0
NE2 N:HIS96 2.7 44.3 1.0
NE2 N:HIS197 2.7 45.4 1.0
C1B N:HEM405 3.0 43.7 1.0
C4B N:HEM405 3.0 43.7 1.0
C1C N:HEM405 3.0 43.7 1.0
C4A N:HEM405 3.0 43.7 1.0
C4D N:HEM405 3.1 43.7 1.0
C4C N:HEM405 3.1 43.7 1.0
C1D N:HEM405 3.1 43.7 1.0
CD2 N:HIS96 3.1 44.3 1.0
C1A N:HEM405 3.1 43.7 1.0
CHC N:HEM405 3.4 43.7 1.0
CHB N:HEM405 3.4 43.7 1.0
CD2 N:HIS197 3.4 45.4 1.0
CHA N:HEM405 3.4 43.7 1.0
CHD N:HEM405 3.4 43.7 1.0
CE1 N:HIS197 3.8 45.4 1.0
CE1 N:HIS96 4.0 44.3 1.0
C2B N:HEM405 4.2 43.7 1.0
C3B N:HEM405 4.2 43.7 1.0
C2C N:HEM405 4.2 43.7 1.0
C3C N:HEM405 4.3 43.7 1.0
C3A N:HEM405 4.3 43.7 1.0
C3D N:HEM405 4.3 43.7 1.0
C2D N:HEM405 4.3 43.7 1.0
C2A N:HEM405 4.3 43.7 1.0
CG N:HIS96 4.4 44.3 1.0
CG N:HIS197 4.6 45.4 1.0
ND1 N:HIS197 4.7 45.4 1.0
ND1 N:HIS96 4.8 44.3 1.0

Iron binding site 6 out of 6 in 8yil

Go back to Iron Binding Sites List in 8yil
Iron binding site 6 out of 6 in the Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State


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 Saccharomyces Cerevisiae BC1 Complex in YF24228- Bound State within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Fe401

b:53.5
occ:1.00
 FE O:HEM401 0.0 53.5 1.0
ND O:HEM401 2.0 53.5 1.0
NC O:HEM401 2.0 53.5 1.0
NA O:HEM401 2.0 53.5 1.0
NB O:HEM401 2.0 53.5 1.0
NE2 O:HIS105 2.7 53.5 1.0
SD O:MET225 3.0 58.9 1.0
C1C O:HEM401 3.0 53.5 1.0
C1D O:HEM401 3.0 53.5 1.0
C4D O:HEM401 3.0 53.5 1.0
C4C O:HEM401 3.0 53.5 1.0
C1A O:HEM401 3.1 53.5 1.0
C1B O:HEM401 3.1 53.5 1.0
C4B O:HEM401 3.1 53.5 1.0
C4A O:HEM401 3.1 53.5 1.0
CD2 O:HIS105 3.3 53.5 1.0
CHC O:HEM401 3.4 53.5 1.0
CHD O:HEM401 3.4 53.5 1.0
CHA O:HEM401 3.4 53.5 1.0
CHB O:HEM401 3.4 53.5 1.0
CE1 O:HIS105 3.8 53.5 1.0
CG O:MET225 4.0 58.9 1.0
CE O:MET225 4.1 58.9 1.0
C2C O:HEM401 4.2 53.5 1.0
C2D O:HEM401 4.3 53.5 1.0
C3D O:HEM401 4.3 53.5 1.0
C3C O:HEM401 4.3 53.5 1.0
C2B O:HEM401 4.3 53.5 1.0
C2A O:HEM401 4.3 53.5 1.0
C3A O:HEM401 4.3 53.5 1.0
C3B O:HEM401 4.3 53.5 1.0
CB O:MET225 4.5 58.9 1.0
CG O:HIS105 4.5 53.5 1.0
ND1 O:HIS105 4.8 53.5 1.0

Reference:

Y.Ye, Z.W.Li, G.F.Yang. Cryo-Em Structure of Saccharomyces Cerevisiae BC1 Complex in YF24228-Bound State To Be Published.
Page generated: Fri Aug 8 01:42:51 2025

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