Iron in PDB 7nyr: Respiratory Complex I From Escherichia Coli - Conformation 1

All present enzymatic activity of Respiratory Complex I From Escherichia Coli - Conformation 1:
1.6.5.11; 1.6.5.3; 1.6.99.5; 7.1.1.2;

The structure of Respiratory Complex I From Escherichia Coli - Conformation 1 also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

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 1 (pdb code 7nyr). 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 1, PDB code: 7nyr:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

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


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe301 b:45.4 occ:1.00 FE1 B:SF4301 0.0 45.4 1.0 S4 B:SF4301 2.3 45.4 1.0 S3 B:SF4301 2.3 45.4 1.0 S2 B:SF4301 2.3 45.4 1.0 SG B:CYS158 2.3 26.8 1.0 FE2 B:SF4301 2.7 45.4 1.0 FE4 B:SF4301 2.7 45.4 1.0 FE3 B:SF4301 2.7 45.4 1.0 CA B:CYS158 3.2 26.8 1.0 CB B:CYS158 3.2 26.8 1.0 C B:CYS158 3.3 26.8 1.0 N B:PRO159 3.7 24.0 1.0 O B:CYS158 3.8 26.8 1.0 S1 B:SF4301 3.9 45.4 1.0 CA B:PRO159 4.2 24.0 1.0 CD2 D:HIS355 4.2 23.6 1.0 CD B:PRO159 4.3 24.0 1.0 NE2 D:HIS355 4.4 23.6 1.0 NE D:ARG270 4.4 18.8 1.0 SG B:CYS64 4.5 47.9 1.0 NH2 D:ARG270 4.6 18.8 1.0 N B:CYS158 4.6 26.8 1.0 CB B:PRO159 4.7 24.0 1.0 SG B:CYS129 4.7 18.3 1.0 O B:GLY157 4.8 21.3 1.0 CB B:CYS64 4.9 47.9 1.0 SG B:CYS63 5.0 53.7 1.0

Iron binding site 2 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe301 b:45.4 occ:1.00 FE2 B:SF4301 0.0 45.4 1.0 S3 B:SF4301 2.3 45.4 1.0 S4 B:SF4301 2.3 45.4 1.0 S1 B:SF4301 2.3 45.4 1.0 SG B:CYS64 2.4 47.9 1.0 CB B:CYS64 2.4 47.9 1.0 FE1 B:SF4301 2.7 45.4 1.0 FE4 B:SF4301 2.7 45.4 1.0 FE3 B:SF4301 2.7 45.4 1.0 CA B:CYS64 3.6 47.9 1.0 SG B:CYS63 3.8 53.7 1.0 S2 B:SF4301 3.9 45.4 1.0 N B:CYS64 4.0 47.9 1.0 C B:CYS63 4.4 53.7 1.0 CA B:GLY100 4.5 30.3 1.0 CB B:PRO159 4.5 24.0 1.0 CA B:PRO159 4.6 24.0 1.0 O B:CYS63 4.6 53.7 1.0 CB B:CYS129 4.6 18.3 1.0 N B:GLY100 4.7 30.3 1.0 CB B:CYS63 4.8 53.7 1.0 C B:CYS64 4.9 47.9 1.0 N B:PRO159 4.9 24.0 1.0 SG B:CYS129 5.0 18.3 1.0 SG B:CYS158 5.0 26.8 1.0

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


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe301 b:45.4 occ:1.00 FE3 B:SF4301 0.0 45.4 1.0 S1 B:SF4301 2.3 45.4 1.0 S2 B:SF4301 2.3 45.4 1.0 S4 B:SF4301 2.3 45.4 1.0 SG B:CYS63 2.3 53.7 1.0 FE4 B:SF4301 2.7 45.4 1.0 FE1 B:SF4301 2.7 45.4 1.0 FE2 B:SF4301 2.7 45.4 1.0 CB B:CYS63 3.5 53.7 1.0 NE2 D:HIS355 3.6 23.6 1.0 S3 B:SF4301 3.9 45.4 1.0 NH2 D:ARG250 4.0 24.1 1.0 CD2 D:HIS355 4.3 23.6 1.0 CB B:CYS64 4.3 47.9 1.0 N B:CYS64 4.4 47.9 1.0 NE D:ARG270 4.5 18.8 1.0 SG B:CYS158 4.5 26.8 1.0 SG B:CYS129 4.6 18.3 1.0 C B:CYS63 4.6 53.7 1.0 CG D:ARG270 4.6 18.8 1.0 CE1 D:HIS355 4.7 23.6 1.0 CA B:CYS63 4.7 53.7 1.0 CD D:ARG270 4.7 18.8 1.0 CA B:CYS64 4.8 47.9 1.0 CZ D:ARG250 4.9 24.1 1.0 SG B:CYS64 5.0 47.9 1.0

Iron binding site 4 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe301 b:45.4 occ:1.00 FE4 B:SF4301 0.0 45.4 1.0 S1 B:SF4301 2.3 45.4 1.0 S2 B:SF4301 2.3 45.4 1.0 S3 B:SF4301 2.3 45.4 1.0 SG B:CYS129 2.3 18.3 1.0 CB B:CYS129 2.7 18.3 1.0 FE1 B:SF4301 2.7 45.4 1.0 FE3 B:SF4301 2.7 45.4 1.0 FE2 B:SF4301 2.7 45.4 1.0 CA B:CYS129 3.9 18.3 1.0 S4 B:SF4301 3.9 45.4 1.0 N B:CYS129 3.9 18.3 1.0 SG B:CYS158 4.1 26.8 1.0 OG1 B:THR101 4.1 33.2 1.0 SG B:CYS63 4.2 53.7 1.0 NH2 D:ARG250 4.8 24.1 1.0 SG B:CYS64 5.0 47.9 1.0 N B:THR101 5.0 33.2 1.0 C B:CYS129 5.0 18.3 1.0

Iron binding site 5 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ E:Fe201 b:14.6 occ:1.00 FE1 E:FES201 0.0 14.6 1.0 S2 E:FES201 2.2 14.6 1.0 S1 E:FES201 2.2 14.6 1.0 SG E:CYS92 2.3 26.9 1.0 SG E:CYS97 2.3 21.2 1.0 FE2 E:FES201 2.7 14.6 1.0 CB E:CYS97 3.1 21.2 1.0 N E:CYS97 3.5 21.2 1.0 CB E:CYS92 3.6 26.9 1.0 CA E:CYS97 3.9 21.2 1.0 SG E:CYS137 4.0 26.5 1.0 CB E:SER94 4.4 21.2 1.0 SG E:CYS133 4.4 28.2 1.0 C E:VAL96 4.5 19.4 1.0 CB E:VAL96 4.5 19.4 1.0 N E:SER94 4.6 21.2 1.0 CA E:CYS137 4.7 26.5 1.0 CB E:CYS137 4.7 26.5 1.0 CA E:CYS133 4.8 28.2 1.0 N E:VAL96 4.8 19.4 1.0 CA E:CYS92 4.9 26.9 1.0 CA E:SER94 4.9 21.2 1.0 CA E:VAL96 4.9 19.4 1.0 C E:SER94 4.9 21.2 1.0 CB E:CYS133 4.9 28.2 1.0 C E:CYS92 4.9 26.9 1.0 ND2 E:ASN142 5.0 28.3 1.0 O E:SER94 5.0 21.2 1.0

Iron binding site 6 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ E:Fe201 b:14.6 occ:1.00 FE2 E:FES201 0.0 14.6 1.0 S1 E:FES201 2.2 14.6 1.0 S2 E:FES201 2.2 14.6 1.0 SG E:CYS137 2.3 26.5 1.0 SG E:CYS133 2.3 28.2 1.0 FE1 E:FES201 2.7 14.6 1.0 N E:LEU134 3.3 17.3 1.0 CB E:CYS133 3.5 28.2 1.0 CA E:CYS133 3.6 28.2 1.0 CB E:CYS137 3.6 26.5 1.0 SG E:CYS92 3.7 26.9 1.0 CA E:CYS137 3.7 26.5 1.0 N E:GLY135 3.7 25.7 1.0 N E:CYS137 3.8 26.5 1.0 C E:CYS133 3.8 28.2 1.0 N E:ASN136 4.1 25.8 1.0 CA E:LEU134 4.3 17.3 1.0 C E:ASN136 4.3 25.8 1.0 C E:LEU134 4.4 17.3 1.0 CA E:GLY135 4.6 25.7 1.0 CB E:LEU134 4.7 17.3 1.0 C E:GLY135 4.7 25.7 1.0 SG E:CYS97 4.8 21.2 1.0 CB E:CYS92 4.8 26.9 1.0 CA E:ASN136 4.8 25.8 1.0 O E:CYS133 4.8 28.2 1.0 ND2 E:ASN142 4.9 28.3 1.0 O E:ASN136 4.9 25.8 1.0 N E:CYS133 5.0 28.2 1.0

Iron binding site 7 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:42.2 occ:1.00 FE1 F:SF4501 0.0 42.2 1.0 S2 F:SF4501 2.3 42.2 1.0 S4 F:SF4501 2.3 42.2 1.0 S3 F:SF4501 2.3 42.2 1.0 SG F:CYS357 2.3 44.4 1.0 CB F:CYS357 2.5 44.4 1.0 FE4 F:SF4501 2.7 42.2 1.0 FE3 F:SF4501 2.7 42.2 1.0 FE2 F:SF4501 2.7 42.2 1.0 SG F:CYS354 3.5 44.7 1.0 OG F:SER350 3.5 12.4 1.0 S1 F:SF4501 3.9 42.2 1.0 CA F:CYS357 4.0 44.4 1.0 CD2 F:HIS400 4.3 8.6 1.0 CB F:SER350 4.6 12.4 1.0 C F:CYS357 4.6 44.4 1.0 N F:CYS357 4.7 44.4 1.0 O F:CYS354 4.8 44.7 1.0 N F:ARG358 4.8 7.3 1.0 SG F:CYS398 4.9 23.1 1.0 CG F:HIS400 4.9 8.6 1.0 SG F:CYS351 4.9 15.2 1.0 N F:CYS351 4.9 15.2 1.0 CA F:SER350 5.0 12.4 1.0

Iron binding site 8 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:42.2 occ:1.00 FE2 F:SF4501 0.0 42.2 1.0 S1 F:SF4501 2.3 42.2 1.0 S4 F:SF4501 2.3 42.2 1.0 S3 F:SF4501 2.3 42.2 1.0 SG F:CYS354 2.3 44.7 1.0 FE3 F:SF4501 2.7 42.2 1.0 FE4 F:SF4501 2.7 42.2 1.0 FE1 F:SF4501 2.7 42.2 1.0 CB F:CYS354 3.0 44.7 1.0 N F:CYS354 3.3 44.7 1.0 CA F:CYS354 3.7 44.7 1.0 S2 F:SF4501 3.9 42.2 1.0 CB F:PHE397 3.9 14.1 1.0 CB F:TRP353 4.1 42.2 1.0 CB F:CYS357 4.3 44.4 1.0 C F:TRP353 4.3 42.2 1.0 O F:CYS354 4.3 44.7 1.0 SG F:CYS351 4.4 15.2 1.0 N F:TRP353 4.4 42.2 1.0 N F:PHE397 4.5 14.1 1.0 C F:CYS354 4.5 44.7 1.0 CA F:TRP353 4.5 42.2 1.0 CD1 F:TRP353 4.7 42.2 1.0 CA F:PHE397 4.7 14.1 1.0 N F:CYS398 4.7 23.1 1.0 SG F:CYS398 4.8 23.1 1.0 CG F:TRP353 4.9 42.2 1.0 CG F:PHE397 4.9 14.1 1.0 SG F:CYS357 4.9 44.4 1.0

Iron binding site 9 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:42.2 occ:1.00 FE3 F:SF4501 0.0 42.2 1.0 S4 F:SF4501 2.3 42.2 1.0 S1 F:SF4501 2.3 42.2 1.0 S2 F:SF4501 2.3 42.2 1.0 SG F:CYS398 2.3 23.1 1.0 FE4 F:SF4501 2.7 42.2 1.0 FE2 F:SF4501 2.7 42.2 1.0 FE1 F:SF4501 2.7 42.2 1.0 CB F:CYS398 3.5 23.1 1.0 N F:CYS398 3.9 23.1 1.0 S3 F:SF4501 3.9 42.2 1.0 CA F:CYS398 4.1 23.1 1.0 CB F:HIS400 4.2 8.6 1.0 SG F:CYS354 4.4 44.7 1.0 C F:CYS398 4.5 23.1 1.0 SG F:CYS351 4.6 15.2 1.0 N F:HIS400 4.6 8.6 1.0 O F:CYS398 4.7 23.1 1.0 SG F:CYS357 4.7 44.4 1.0 CG F:PRO197 4.8 16.6 1.0 CD1 F:ILE179 4.8 13.9 1.0 C F:PHE397 4.8 14.1 1.0 CG F:HIS400 4.9 8.6 1.0 CB F:CYS357 4.9 44.4 1.0 CD2 F:HIS400 4.9 8.6 1.0 CB F:PHE397 4.9 14.1 1.0 CA F:HIS400 5.0 8.6 1.0

Iron binding site 10 out of 32 in the Respiratory Complex I From Escherichia Coli - Conformation 1


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 1 within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:42.2 occ:1.00 FE4 F:SF4501 0.0 42.2 1.0 SG F:CYS351 2.3 15.2 1.0 S3 F:SF4501 2.3 42.2 1.0 S2 F:SF4501 2.3 42.2 1.0 S1 F:SF4501 2.3 42.2 1.0 FE3 F:SF4501 2.7 42.2 1.0 FE1 F:SF4501 2.7 42.2 1.0 FE2 F:SF4501 2.7 42.2 1.0 CB F:CYS351 3.5 15.2 1.0 N F:CYS351 3.5 15.2 1.0 S4 F:SF4501 3.9 42.2 1.0 N F:GLY352 3.9 20.7 1.0 CA F:CYS351 3.9 15.2 1.0 N F:TRP353 4.1 42.2 1.0 OG F:SER350 4.1 12.4 1.0 C F:CYS351 4.3 15.2 1.0 CB F:TRP353 4.4 42.2 1.0 SG F:CYS398 4.6 23.1 1.0 C F:SER350 4.6 12.4 1.0 SG F:CYS357 4.8 44.4 1.0 N F:CYS354 4.8 44.7 1.0 SG F:CYS354 4.8 44.7 1.0 CA F:TRP353 4.8 42.2 1.0 CD F:PRO197 4.8 16.6 1.0 CA F:SER350 4.9 12.4 1.0 CA F:GLY352 4.9 20.7 1.0 C F:GLY352 4.9 20.7 1.0 CD1 F:ILE179 5.0 13.9 1.0 CG1 F:ILE179 5.0 13.9 1.0

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