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Iron in PDB 9cd6: Cryo-Em Structure of Respiratory Supercomplex I in Open State

Enzymatic activity of Cryo-Em Structure of Respiratory Supercomplex I in Open State

All present enzymatic activity of Cryo-Em Structure of Respiratory Supercomplex I in Open State:
7.1.1.2;

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 28;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure of Respiratory Supercomplex I in Open State (pdb code 9cd6). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Cryo-Em Structure of Respiratory Supercomplex I in Open State, PDB code: 9cd6:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 9cd6

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Iron binding site 1 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open 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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe502

b:20.0
occ:1.00
 FE1 B:SF4502 0.0 20.0 1.0
FE4 B:SF4502 1.0 20.0 1.0
FE3 B:SF4502 1.0 20.0 1.0
FE2 B:SF4502 1.0 20.0 1.0
SG B:CYS425 2.3 95.8 1.0
S3 B:SF4502 2.5 20.0 1.0
S2 B:SF4502 2.5 20.0 1.0
S4 B:SF4502 2.5 20.0 1.0
SG B:CYS379 3.1 96.1 1.0
SG B:CYS382 3.2 97.4 1.0
SG B:CYS385 3.2 98.1 1.0
S1 B:SF4502 3.3 20.0 1.0
CB B:CYS385 3.7 98.1 1.0
CB B:CYS425 4.0 95.8 1.0
CB B:LEU427 4.5 97.5 1.0
N B:CYS425 4.5 95.8 1.0
CB B:CYS379 4.6 96.1 1.0
N B:CYS379 4.7 96.1 1.0
OG B:SER378 4.7 97.2 1.0
CD1 B:ILE205 4.7 96.9 1.0
CA B:CYS425 4.8 95.8 1.0
CB B:CYS382 5.0 97.4 1.0

Iron binding site 2 out of 28 in 9cd6

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Iron binding site 2 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open 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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe502

b:20.0
occ:1.00
 FE2 B:SF4502 0.0 20.0 1.0
FE4 B:SF4502 1.0 20.0 1.0
FE3 B:SF4502 1.0 20.0 1.0
FE1 B:SF4502 1.0 20.0 1.0
SG B:CYS385 2.3 98.1 1.0
S1 B:SF4502 2.5 20.0 1.0
S3 B:SF4502 2.5 20.0 1.0
S4 B:SF4502 2.6 20.0 1.0
CB B:CYS385 2.9 98.1 1.0
SG B:CYS382 3.1 97.4 1.0
SG B:CYS379 3.2 96.1 1.0
SG B:CYS425 3.2 95.8 1.0
S2 B:SF4502 3.3 20.0 1.0
OG B:SER378 3.8 97.2 1.0
N B:CYS379 4.3 96.1 1.0
CA B:CYS385 4.4 98.1 1.0
N B:GLY380 4.5 96.2 1.0
CB B:CYS379 4.6 96.1 1.0
N B:CYS382 4.8 97.4 1.0
CB B:LEU427 4.8 97.5 1.0
CB B:CYS382 4.8 97.4 1.0
CD2 B:LEU427 4.9 97.5 1.0
N B:GLN381 4.9 97.3 1.0
CA B:CYS379 4.9 96.1 1.0
CB B:SER378 5.0 97.2 1.0

Iron binding site 3 out of 28 in 9cd6

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Iron binding site 3 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open 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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe502

b:20.0
occ:1.00
 FE3 B:SF4502 0.0 20.0 1.0
FE4 B:SF4502 1.0 20.0 1.0
FE1 B:SF4502 1.0 20.0 1.0
FE2 B:SF4502 1.0 20.0 1.0
SG B:CYS379 2.3 96.1 1.0
S4 B:SF4502 2.5 20.0 1.0
S2 B:SF4502 2.5 20.0 1.0
S1 B:SF4502 2.6 20.0 1.0
SG B:CYS382 3.1 97.4 1.0
SG B:CYS425 3.2 95.8 1.0
SG B:CYS385 3.2 98.1 1.0
S3 B:SF4502 3.3 20.0 1.0
CB B:CYS385 3.8 98.1 1.0
CB B:CYS379 3.8 96.1 1.0
N B:CYS379 4.1 96.1 1.0
N B:GLY380 4.2 96.2 1.0
OG B:SER378 4.3 97.2 1.0
N B:GLN381 4.3 97.3 1.0
N B:CYS382 4.4 97.4 1.0
CA B:CYS379 4.4 96.1 1.0
CB B:CYS382 4.8 97.4 1.0
C B:CYS379 4.8 96.1 1.0
CB B:GLN381 4.8 97.3 1.0
CB B:CYS425 4.8 95.8 1.0
CD B:PRO223 4.9 97.1 1.0

Iron binding site 4 out of 28 in 9cd6

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Iron binding site 4 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open 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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe502

b:20.0
occ:1.00
 FE4 B:SF4502 0.0 20.0 1.0
FE1 B:SF4502 1.0 20.0 1.0
FE3 B:SF4502 1.0 20.0 1.0
FE2 B:SF4502 1.0 20.0 1.0
SG B:CYS382 2.3 97.4 1.0
S2 B:SF4502 2.5 20.0 1.0
S1 B:SF4502 2.5 20.0 1.0
S3 B:SF4502 2.6 20.0 1.0
SG B:CYS425 3.0 95.8 1.0
SG B:CYS385 3.1 98.1 1.0
SG B:CYS379 3.2 96.1 1.0
CB B:CYS385 3.2 98.1 1.0
S4 B:SF4502 3.3 20.0 1.0
CB B:CYS382 4.0 97.4 1.0
N B:CYS382 4.1 97.4 1.0
CB B:CYS425 4.6 95.8 1.0
CA B:CYS382 4.7 97.4 1.0
N B:CYS425 4.7 95.8 1.0
CA B:CYS385 4.7 98.1 1.0
OG B:SER378 4.7 97.2 1.0
N B:GLN381 4.7 97.3 1.0
CB B:CYS379 4.8 96.1 1.0
O B:CYS382 4.9 97.4 1.0
N B:GLY380 4.9 96.2 1.0
N B:CYS379 5.0 96.1 1.0

Iron binding site 5 out of 28 in 9cd6

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Iron binding site 5 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open 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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe301

b:20.0
occ:1.00
 FE1 E:FES301 0.0 20.0 1.0
S1 E:FES301 2.2 20.0 1.0
S2 E:FES301 2.2 20.0 1.0
FE2 E:FES301 2.7 20.0 1.0
CB E:CYS180 2.7 0.0 1.0
CA E:CYS180 2.9 0.0 1.0
CB E:CYS176 3.0 0.0 1.0
CA E:CYS176 3.1 0.0 1.0
N E:CYS180 3.7 0.0 1.0
N E:CYS176 3.8 0.0 1.0
SG E:CYS176 3.9 0.0 1.0
SG E:CYS180 4.0 0.0 1.0
CB E:PRO139 4.0 0.0 1.0
C E:CYS180 4.2 0.0 1.0
SG E:CYS135 4.3 0.0 1.0
SG E:CYS140 4.3 0.0 1.0
CG E:PRO139 4.4 0.0 1.0
O E:CYS180 4.4 0.0 1.0
C E:ALA179 4.4 0.0 1.0
C E:GLU175 4.4 0.0 1.0
N B:GLY123 4.4 97.4 1.0
C E:CYS176 4.5 0.0 1.0
O E:ALA179 4.6 0.0 1.0
O E:GLU175 4.7 0.0 1.0
N E:CYS140 4.7 0.0 1.0
N E:LEU177 4.9 0.0 1.0
CD E:PRO139 4.9 0.0 1.0

Iron binding site 6 out of 28 in 9cd6

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Iron binding site 6 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open 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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe301

b:20.0
occ:1.00
 FE2 E:FES301 0.0 20.0 1.0
S1 E:FES301 2.2 20.0 1.0
S2 E:FES301 2.2 20.0 1.0
SG E:CYS135 2.2 0.0 1.0
SG E:CYS140 2.3 0.0 1.0
FE1 E:FES301 2.7 20.0 1.0
CB E:CYS140 2.9 0.0 1.0
CB E:CYS135 3.1 0.0 1.0
N E:CYS140 3.7 0.0 1.0
CA E:CYS140 3.8 0.0 1.0
O E:GLU175 4.3 0.0 1.0
C E:GLU175 4.4 0.0 1.0
CA E:CYS135 4.4 0.0 1.0
CA E:CYS176 4.5 0.0 1.0
N E:CYS176 4.5 0.0 1.0
N E:THR137 4.6 0.0 1.0
C E:CYS135 4.6 0.0 1.0
CB E:THR137 4.7 0.0 1.0
O E:THR137 4.7 0.0 1.0
OG1 E:THR137 4.7 0.0 1.0
CE E:MET185 4.8 0.0 1.0
C E:PRO139 4.9 0.0 1.0
CB E:PRO139 4.9 0.0 1.0
N E:THR136 4.9 0.0 1.0
O E:CYS135 4.9 0.0 1.0
CA E:CYS180 5.0 0.0 1.0

Iron binding site 7 out of 28 in 9cd6

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Iron binding site 7 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open State


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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe301

b:20.0
occ:1.00
 FE1 H:SF4301 0.0 20.0 1.0
NE2 H:HIS101 2.1 0.0 1.0
S4 H:SF4301 2.3 20.0 1.0
SG H:CYS152 2.3 0.0 1.0
S3 H:SF4301 2.3 20.0 1.0
S2 H:SF4301 2.3 20.0 1.0
FE3 H:SF4301 2.7 20.0 1.0
FE4 H:SF4301 2.7 20.0 1.0
FE2 H:SF4301 2.8 20.0 1.0
CE1 H:HIS101 2.9 0.0 1.0
CD2 H:HIS101 3.2 0.0 1.0
CB H:CYS152 3.6 0.0 1.0
S1 H:SF4301 3.9 20.0 1.0
N H:TYR154 4.0 0.0 1.0
ND1 H:HIS101 4.1 0.0 1.0
CA H:TYR154 4.1 0.0 1.0
CG H:HIS101 4.2 0.0 1.0
CD1 H:ILE147 4.3 0.0 1.0
SG H:CYS158 4.4 0.0 1.0
CA H:CYS152 4.5 0.0 1.0
N H:CYS155 4.6 0.0 1.0
OE2 H:GLU169 4.6 0.0 1.0
N H:ILE153 4.7 0.0 1.0
C H:TYR154 4.8 0.0 1.0
CD H:GLU169 4.9 0.0 1.0
SG H:CYS155 4.9 0.0 1.0
C H:CYS152 4.9 0.0 1.0
SG H:CYS123 4.9 0.0 1.0

Iron binding site 8 out of 28 in 9cd6

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Iron binding site 8 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open State


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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe301

b:20.0
occ:1.00
 FE2 H:SF4301 0.0 20.0 1.0
SG H:CYS123 2.3 0.0 1.0
S1 H:SF4301 2.3 20.0 1.0
S4 H:SF4301 2.3 20.0 1.0
S3 H:SF4301 2.3 20.0 1.0
FE3 H:SF4301 2.7 20.0 1.0
FE4 H:SF4301 2.7 20.0 1.0
FE1 H:SF4301 2.8 20.0 1.0
CB H:CYS123 3.6 0.0 1.0
S2 H:SF4301 3.9 20.0 1.0
CA H:CYS123 4.2 0.0 1.0
SG H:CYS152 4.2 0.0 1.0
CD1 H:ILE128 4.3 0.0 1.0
CG1 H:ILE128 4.3 0.0 1.0
SG H:CYS155 4.4 0.0 1.0
CB H:ALA127 4.6 0.0 1.0
NE2 H:HIS101 4.6 0.0 1.0
CB H:CYS152 4.6 0.0 1.0
CB H:CYS158 4.7 0.0 1.0
CD H:PRO124 4.7 0.0 1.0
SG H:CYS158 4.9 0.0 1.0
C H:CYS123 4.9 0.0 1.0
CA H:CYS152 5.0 0.0 1.0

Iron binding site 9 out of 28 in 9cd6

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Iron binding site 9 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open State


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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe301

b:20.0
occ:1.00
 FE3 H:SF4301 0.0 20.0 1.0
SG H:CYS155 2.2 0.0 1.0
S4 H:SF4301 2.3 20.0 1.0
S1 H:SF4301 2.3 20.0 1.0
S2 H:SF4301 2.3 20.0 1.0
FE4 H:SF4301 2.7 20.0 1.0
FE2 H:SF4301 2.7 20.0 1.0
FE1 H:SF4301 2.7 20.0 1.0
N H:CYS155 3.2 0.0 1.0
N H:GLY156 3.4 0.0 1.0
CB H:CYS155 3.6 0.0 1.0
CA H:CYS155 3.8 0.0 1.0
S3 H:SF4301 3.9 20.0 1.0
N H:PHE157 4.1 0.0 1.0
C H:CYS155 4.1 0.0 1.0
C H:TYR154 4.2 0.0 1.0
N H:TYR154 4.2 0.0 1.0
SG H:CYS152 4.2 0.0 1.0
CA H:GLY156 4.4 0.0 1.0
CA H:TYR154 4.4 0.0 1.0
NE2 H:HIS101 4.4 0.0 1.0
CD H:PRO124 4.5 0.0 1.0
N H:CYS158 4.5 0.0 1.0
CG1 H:ILE153 4.6 0.0 1.0
SG H:CYS123 4.6 0.0 1.0
SG H:CYS158 4.6 0.0 1.0
C H:GLY156 4.6 0.0 1.0
CB H:PHE157 4.9 0.0 1.0
CB H:CYS158 4.9 0.0 1.0
CA H:PHE157 4.9 0.0 1.0
N H:ILE153 4.9 0.0 1.0
C H:ILE153 4.9 0.0 1.0
CG H:PRO124 5.0 0.0 1.0

Iron binding site 10 out of 28 in 9cd6

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Iron binding site 10 out of 28 in the Cryo-Em Structure of Respiratory Supercomplex I in Open State


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 Respiratory Supercomplex I in Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe301

b:20.0
occ:1.00
 FE4 H:SF4301 0.0 20.0 1.0
SG H:CYS158 2.2 0.0 1.0
S3 H:SF4301 2.3 20.0 1.0
S1 H:SF4301 2.3 20.0 1.0
S2 H:SF4301 2.3 20.0 1.0
CB H:CYS158 2.5 0.0 1.0
FE3 H:SF4301 2.7 20.0 1.0
FE2 H:SF4301 2.7 20.0 1.0
FE1 H:SF4301 2.7 20.0 1.0
N H:CYS158 3.4 0.0 1.0
CA H:CYS158 3.5 0.0 1.0
NE2 H:HIS101 3.5 0.0 1.0
CD2 H:HIS101 3.8 0.0 1.0
S4 H:SF4301 3.9 20.0 1.0
CD1 H:ILE128 4.4 0.0 1.0
N H:PHE157 4.6 0.0 1.0
SG H:CYS155 4.6 0.0 1.0
C H:PHE157 4.6 0.0 1.0
C H:CYS158 4.6 0.0 1.0
N H:GLY156 4.6 0.0 1.0
SG H:CYS123 4.7 0.0 1.0
N H:GLN159 4.8 0.0 1.0
C H:GLY156 4.8 0.0 1.0
CE1 H:HIS101 4.8 0.0 1.0
CA H:GLY156 4.8 0.0 1.0

Reference:

Z.Zhang, R.Maharjan, M.Tringides. Cryo-Em Structure of Respiratory Supercomplex I in Open State To Be Published.
Page generated: Sat Aug 23 02:57:04 2025

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