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Iron in PDB 7nyv: Respiratory Complex I From Escherichia Coli - Conformation 3

Enzymatic activity of Respiratory Complex I From Escherichia Coli - Conformation 3

All present enzymatic activity of Respiratory Complex I From Escherichia Coli - Conformation 3:
1.6.5.11; 1.6.5.3; 1.6.99.5; 7.1.1.2;

Other elements in 7nyv:

The structure of Respiratory Complex I From Escherichia Coli - Conformation 3 also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Iron atom in the Respiratory Complex I From Escherichia Coli - Conformation 3 (pdb code 7nyv). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 32 binding sites of Iron where determined in the Respiratory Complex I From Escherichia Coli - Conformation 3, PDB code: 7nyv:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 32 in 7nyv

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Iron binding site 1 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:88.2
occ:1.00
 FE1 B:SF4301 0.0 88.2 1.0
S3 B:SF4301 2.3 88.2 1.0
S2 B:SF4301 2.3 88.2 1.0
S4 B:SF4301 2.3 88.2 1.0
SG B:CYS158 2.3 70.2 1.0
FE4 B:SF4301 2.7 88.2 1.0
FE2 B:SF4301 2.7 88.2 1.0
FE3 B:SF4301 2.7 88.2 1.0
CB B:CYS158 3.5 70.2 1.0
CA B:CYS158 3.7 70.2 1.0
C B:CYS158 3.8 70.2 1.0
S1 B:SF4301 3.9 88.2 1.0
N B:PRO159 4.1 68.0 1.0
O B:CYS158 4.1 70.2 1.0
NE D:ARG270 4.2 66.7 1.0
CD2 D:HIS355 4.5 70.6 1.0
NH2 D:ARG270 4.6 66.7 1.0
NE2 D:HIS355 4.6 70.6 1.0
SG B:CYS64 4.6 92.8 1.0
SG B:CYS129 4.6 67.6 1.0
CA B:PRO159 4.6 68.0 1.0
CD B:PRO159 4.7 68.0 1.0
CZ D:ARG270 4.9 66.7 1.0

Iron binding site 2 out of 32 in 7nyv

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Iron binding site 2 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:88.2
occ:1.00
 FE2 B:SF4301 0.0 88.2 1.0
S3 B:SF4301 2.3 88.2 1.0
S4 B:SF4301 2.3 88.2 1.0
S1 B:SF4301 2.3 88.2 1.0
SG B:CYS64 2.4 92.8 1.0
CB B:CYS64 2.6 92.8 1.0
FE1 B:SF4301 2.7 88.2 1.0
FE3 B:SF4301 2.7 88.2 1.0
FE4 B:SF4301 2.7 88.2 1.0
CA B:CYS64 3.8 92.8 1.0
S2 B:SF4301 3.9 88.2 1.0
SG B:CYS63 4.0 97.8 1.0
N B:CYS64 4.3 92.8 1.0
CA B:PRO159 4.6 68.0 1.0
CB B:PRO159 4.6 68.0 1.0
C B:CYS63 4.7 97.8 1.0
CA B:GLY100 4.8 74.7 1.0
O B:CYS63 4.8 97.8 1.0
CB B:CYS129 4.8 67.6 1.0
SG B:CYS158 4.9 70.2 1.0
N B:PRO159 4.9 68.0 1.0
SG B:CYS129 5.0 67.6 1.0

Iron binding site 3 out of 32 in 7nyv

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Iron binding site 3 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:88.2
occ:1.00
 FE3 B:SF4301 0.0 88.2 1.0
S1 B:SF4301 2.3 88.2 1.0
S2 B:SF4301 2.3 88.2 1.0
S4 B:SF4301 2.3 88.2 1.0
SG B:CYS63 2.3 97.8 1.0
FE2 B:SF4301 2.7 88.2 1.0
FE4 B:SF4301 2.7 88.2 1.0
FE1 B:SF4301 2.7 88.2 1.0
NH2 D:ARG250 3.5 69.6 1.0
CB B:CYS63 3.7 97.8 1.0
S3 B:SF4301 3.9 88.2 1.0
CB B:CYS64 4.3 92.8 1.0
NE2 D:HIS355 4.3 70.6 1.0
N B:CYS64 4.6 92.8 1.0
CZ D:ARG250 4.6 69.6 1.0
SG B:CYS129 4.7 67.6 1.0
C B:CYS63 4.7 97.8 1.0
CA B:CYS63 4.8 97.8 1.0
SG B:CYS64 4.9 92.8 1.0
SG B:CYS158 4.9 70.2 1.0
NE D:ARG270 4.9 66.7 1.0
CA B:CYS64 4.9 92.8 1.0
CG D:ARG270 4.9 66.7 1.0

Iron binding site 4 out of 32 in 7nyv

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Iron binding site 4 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:88.2
occ:1.00
 FE4 B:SF4301 0.0 88.2 1.0
S1 B:SF4301 2.3 88.2 1.0
S2 B:SF4301 2.3 88.2 1.0
S3 B:SF4301 2.3 88.2 1.0
SG B:CYS129 2.3 67.6 1.0
FE1 B:SF4301 2.7 88.2 1.0
FE3 B:SF4301 2.7 88.2 1.0
FE2 B:SF4301 2.7 88.2 1.0
CB B:CYS129 2.8 67.6 1.0
S4 B:SF4301 3.9 88.2 1.0
OG1 B:THR101 3.9 75.6 1.0
CA B:CYS129 4.1 67.6 1.0
N B:CYS129 4.1 67.6 1.0
SG B:CYS158 4.4 70.2 1.0
SG B:CYS63 4.5 97.8 1.0
NH2 D:ARG250 4.8 69.6 1.0
N B:THR101 4.9 75.6 1.0
SG B:CYS64 5.0 92.8 1.0

Iron binding site 5 out of 32 in 7nyv

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Iron binding site 5 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:66.1
occ:1.00
 FE1 E:FES201 0.0 66.1 1.0
S2 E:FES201 2.2 66.1 1.0
S1 E:FES201 2.2 66.1 1.0
SG E:CYS92 2.3 62.9 1.0
SG E:CYS97 2.3 69.6 1.0
FE2 E:FES201 2.7 66.1 1.0
CB E:CYS97 3.4 69.6 1.0
CB E:CYS92 3.5 62.9 1.0
N E:CYS97 3.8 69.6 1.0
SG E:CYS137 4.1 67.9 1.0
CA E:CYS97 4.1 69.6 1.0
SG E:CYS133 4.5 63.5 1.0
CB E:SER94 4.5 63.7 1.0
C E:VAL96 4.7 69.5 1.0
CB E:VAL96 4.7 69.5 1.0
N E:SER94 4.8 63.7 1.0
CA E:CYS133 4.8 63.5 1.0
CA E:CYS92 4.8 62.9 1.0
CA E:CYS137 4.8 67.9 1.0
CB E:CYS137 4.9 67.9 1.0
O E:GLY140 4.9 68.0 1.0
N E:LEU134 5.0 65.3 1.0
C E:CYS92 5.0 62.9 1.0
CB E:CYS133 5.0 63.5 1.0
ND2 E:ASN142 5.0 69.1 1.0

Iron binding site 6 out of 32 in 7nyv

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Iron binding site 6 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:66.1
occ:1.00
 FE2 E:FES201 0.0 66.1 1.0
S1 E:FES201 2.2 66.1 1.0
S2 E:FES201 2.2 66.1 1.0
SG E:CYS133 2.3 63.5 1.0
SG E:CYS137 2.3 67.9 1.0
FE1 E:FES201 2.7 66.1 1.0
N E:LEU134 3.2 65.3 1.0
CB E:CYS133 3.4 63.5 1.0
CA E:CYS133 3.5 63.5 1.0
CB E:CYS137 3.7 67.9 1.0
N E:GLY135 3.7 67.8 1.0
C E:CYS133 3.7 63.5 1.0
SG E:CYS92 3.7 62.9 1.0
CA E:CYS137 3.9 67.9 1.0
N E:CYS137 3.9 67.9 1.0
N E:ASN136 4.1 66.1 1.0
CA E:LEU134 4.2 65.3 1.0
C E:LEU134 4.4 65.3 1.0
C E:ASN136 4.5 66.1 1.0
CA E:GLY135 4.5 67.8 1.0
CB E:LEU134 4.6 65.3 1.0
O E:CYS133 4.7 63.5 1.0
C E:GLY135 4.8 67.8 1.0
CB E:CYS92 4.9 62.9 1.0
N E:CYS133 4.9 63.5 1.0
CA E:ASN136 4.9 66.1 1.0
SG E:CYS97 4.9 69.6 1.0

Iron binding site 7 out of 32 in 7nyv

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Iron binding site 7 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:80.7
occ:1.00
 FE1 F:SF4501 0.0 80.7 1.0
S3 F:SF4501 2.3 80.7 1.0
S4 F:SF4501 2.3 80.7 1.0
S2 F:SF4501 2.3 80.7 1.0
SG F:CYS357 2.3 47.5 1.0
FE2 F:SF4501 2.7 80.7 1.0
FE4 F:SF4501 2.7 80.7 1.0
FE3 F:SF4501 2.7 80.7 1.0
CB F:CYS357 2.8 47.5 1.0
SG F:CYS354 3.7 48.4 1.0
S1 F:SF4501 3.9 80.7 1.0
OG F:SER350 3.9 52.2 1.0
CD2 F:HIS400 4.1 45.4 1.0
SG F:CYS398 4.2 45.6 1.0
CA F:CYS357 4.3 47.5 1.0
CG F:HIS400 4.6 45.4 1.0
CB F:HIS400 4.6 45.4 1.0
CB F:SER350 4.8 52.2 1.0
SG F:CYS351 4.9 47.0 1.0
C F:CYS357 4.9 47.5 1.0

Iron binding site 8 out of 32 in 7nyv

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Iron binding site 8 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:80.7
occ:1.00
 FE2 F:SF4501 0.0 80.7 1.0
S4 F:SF4501 2.3 80.7 1.0
S1 F:SF4501 2.3 80.7 1.0
S3 F:SF4501 2.3 80.7 1.0
SG F:CYS354 2.3 48.4 1.0
FE1 F:SF4501 2.7 80.7 1.0
FE3 F:SF4501 2.7 80.7 1.0
FE4 F:SF4501 2.7 80.7 1.0
CB F:CYS354 3.1 48.4 1.0
N F:CYS354 3.2 48.4 1.0
CA F:CYS354 3.6 48.4 1.0
S2 F:SF4501 3.9 80.7 1.0
SG F:CYS351 4.0 47.0 1.0
CB F:CYS357 4.0 47.5 1.0
CB F:TRP353 4.1 43.1 1.0
O F:CYS354 4.1 48.4 1.0
N F:TRP353 4.2 43.1 1.0
C F:TRP353 4.2 43.1 1.0
CB F:PHE397 4.3 47.4 1.0
C F:CYS354 4.4 48.4 1.0
CA F:TRP353 4.4 43.1 1.0
SG F:CYS357 4.6 47.5 1.0
CD1 F:TRP353 4.8 43.1 1.0
CG F:TRP353 4.9 43.1 1.0

Iron binding site 9 out of 32 in 7nyv

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Iron binding site 9 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:80.7
occ:1.00
 FE3 F:SF4501 0.0 80.7 1.0
S1 F:SF4501 2.3 80.7 1.0
S4 F:SF4501 2.3 80.7 1.0
S2 F:SF4501 2.3 80.7 1.0
SG F:CYS398 2.3 45.6 1.0
FE2 F:SF4501 2.7 80.7 1.0
FE4 F:SF4501 2.7 80.7 1.0
FE1 F:SF4501 2.7 80.7 1.0
CB F:CYS398 3.2 45.6 1.0
N F:CYS398 3.4 45.6 1.0
CA F:CYS398 3.8 45.6 1.0
S3 F:SF4501 3.9 80.7 1.0
SG F:CYS354 4.1 48.4 1.0
C F:PHE397 4.3 47.4 1.0
CB F:PHE397 4.3 47.4 1.0
C F:CYS398 4.4 45.6 1.0
CG F:PRO197 4.4 35.5 1.0
CA F:PHE397 4.7 47.4 1.0
N F:PHE397 4.7 47.4 1.0
SG F:CYS351 4.7 47.0 1.0
O F:CYS398 4.7 45.6 1.0
CB F:HIS400 4.9 45.4 1.0
CD1 F:ILE179 4.9 51.0 1.0

Iron binding site 10 out of 32 in 7nyv

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Iron binding site 10 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Respiratory Complex I From Escherichia Coli - Conformation 3 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:80.7
occ:1.00
 FE4 F:SF4501 0.0 80.7 1.0
S3 F:SF4501 2.3 80.7 1.0
S1 F:SF4501 2.3 80.7 1.0
S2 F:SF4501 2.3 80.7 1.0
SG F:CYS351 2.3 47.0 1.0
FE3 F:SF4501 2.7 80.7 1.0
FE1 F:SF4501 2.7 80.7 1.0
FE2 F:SF4501 2.7 80.7 1.0
CB F:CYS351 3.5 47.0 1.0
N F:CYS351 3.6 47.0 1.0
S4 F:SF4501 3.9 80.7 1.0
CA F:CYS351 4.1 47.0 1.0
SG F:CYS398 4.3 45.6 1.0
CD1 F:ILE179 4.3 51.0 1.0
N F:GLY352 4.4 49.9 1.0
OG F:SER350 4.4 52.2 1.0
CG1 F:ILE179 4.4 51.0 1.0
CD F:PRO197 4.6 35.5 1.0
C F:CYS351 4.6 47.0 1.0
N F:TRP353 4.6 43.1 1.0
CG F:PRO197 4.7 35.5 1.0
C F:SER350 4.7 52.2 1.0
SG F:CYS357 4.7 47.5 1.0
CB F:TRP353 4.8 43.1 1.0
CA F:SER350 4.9 52.2 1.0
SG F:CYS354 4.9 48.4 1.0

Reference:

P.Kolata, R.G.Efremov. Structure of Escherichia Coli Respiratory Complex I Reconstituted Into Lipid Nanodiscs Reveals An Uncoupled Conformation. Elife V. 10 2021.
ISSN: ESSN 2050-084X
PubMed: 34308841
DOI: 10.7554/ELIFE.68710
Page generated: Thu Aug 7 00:28:28 2025

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