Iron in PDB 6zkd: Complex I During Turnover, OPEN1

All present enzymatic activity of Complex I During Turnover, OPEN1:
1.6.99.3; 7.1.1.2;

The structure of Complex I During Turnover, OPEN1 also contains other interesting chemical elements:

Potassium	(K)	1 atom
Zinc	(Zn)	1 atom

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 Complex I During Turnover, OPEN1 (pdb code 6zkd). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Complex I During Turnover, OPEN1, PDB code: 6zkd:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe501 b:31.7 occ:1.00 FE1 1:SF4501 0.0 31.7 1.0 S3 1:SF4501 2.3 52.4 1.0 S2 1:SF4501 2.3 40.9 1.0 S4 1:SF4501 2.3 70.5 1.0 SG 1:CYS365 2.3 27.0 1.0 FE3 1:SF4501 2.7 34.6 1.0 FE2 1:SF4501 2.7 44.9 1.0 CB 1:CYS365 2.8 18.6 1.0 FE4 1:SF4501 2.8 39.4 1.0 OG 1:SER358 3.4 26.5 1.0 S1 1:SF4501 4.2 43.0 1.0 CD2 1:LEU407 4.2 41.0 1.0 CA 1:CYS365 4.3 28.4 1.0 N 1:CYS359 4.3 30.2 1.0 CB 1:SER358 4.4 32.0 1.0 CA 1:SER358 4.6 35.3 1.0 CB 1:LEU407 4.7 29.4 1.0 C 1:CYS365 4.7 31.0 1.0 N 1:GLY360 4.8 27.0 1.0 C 1:SER358 4.9 40.4 1.0 N 1:ARG366 4.9 29.8 1.0 CG 1:LEU407 4.9 38.1 1.0 SG 1:CYS362 4.9 40.1 1.0

Iron binding site 2 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe501 b:44.9 occ:1.00 FE2 1:SF4501 0.0 44.9 1.0 S3 1:SF4501 2.3 52.4 1.0 S1 1:SF4501 2.3 43.0 1.0 S4 1:SF4501 2.4 70.5 1.0 FE3 1:SF4501 2.5 34.6 1.0 FE4 1:SF4501 2.5 39.4 1.0 FE1 1:SF4501 2.7 31.7 1.0 SG 1:CYS362 3.0 40.1 1.0 N 1:CYS362 3.3 27.0 1.0 CB 1:CYS362 3.7 23.3 1.0 S2 1:SF4501 3.8 40.9 1.0 CA 1:CYS362 4.0 21.4 1.0 CB 1:CYS365 4.1 18.6 1.0 CB 1:GLN361 4.1 25.9 1.0 N 1:GLN361 4.2 27.9 1.0 O 1:CYS362 4.3 18.6 1.0 C 1:GLN361 4.4 28.5 1.0 CA 1:GLN361 4.5 48.3 1.0 C 1:CYS362 4.6 18.1 1.0 SG 1:CYS365 4.6 27.0 1.0 N 1:ILE404 4.6 34.1 1.0 CB 1:ILE404 4.6 34.4 1.0 CD1 1:ILE404 4.7 25.6 1.0 SG 1:CYS359 4.8 42.9 1.0 CG1 1:ILE404 4.8 27.3 1.0 CB 1:THR403 5.0 28.1 1.0

Iron binding site 3 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe501 b:34.6 occ:1.00 FE3 1:SF4501 0.0 34.6 1.0 S4 1:SF4501 2.3 70.5 1.0 S1 1:SF4501 2.3 43.0 1.0 S2 1:SF4501 2.4 40.9 1.0 FE4 1:SF4501 2.4 39.4 1.0 FE2 1:SF4501 2.5 44.9 1.0 FE1 1:SF4501 2.7 31.7 1.0 SG 1:CYS359 3.0 42.9 1.0 S3 1:SF4501 3.7 52.4 1.0 CB 1:CYS359 3.9 30.3 1.0 CD 1:PRO203 3.9 31.7 1.0 N 1:CYS359 4.0 30.2 1.0 N 1:GLN361 4.1 27.9 1.0 CB 1:GLN361 4.1 25.9 1.0 N 1:GLY360 4.3 27.0 1.0 CG 1:PRO203 4.3 32.0 1.0 CA 1:CYS359 4.4 33.3 1.0 OE1 1:GLN361 4.5 22.5 1.0 CD1 1:ILE185 4.7 32.5 1.0 C 1:CYS359 4.7 27.4 1.0 CG1 1:ILE185 4.7 30.5 1.0 CA 1:GLN361 4.7 48.3 1.0 SG 1:CYS405 4.8 37.4 1.0 N 1:CYS362 4.9 27.0 1.0 SG 1:CYS365 5.0 27.0 1.0

Iron binding site 4 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe501 b:39.4 occ:1.00 FE4 1:SF4501 0.0 39.4 1.0 S2 1:SF4501 2.3 40.9 1.0 S1 1:SF4501 2.3 43.0 1.0 S3 1:SF4501 2.3 52.4 1.0 FE3 1:SF4501 2.4 34.6 1.0 FE2 1:SF4501 2.5 44.9 1.0 FE1 1:SF4501 2.8 31.7 1.0 SG 1:CYS405 3.0 37.4 1.0 N 1:CYS405 3.7 30.9 1.0 S4 1:SF4501 3.8 70.5 1.0 CB 1:CYS405 4.0 35.9 1.0 CG 1:PRO203 4.2 32.0 1.0 CA 1:CYS405 4.2 30.4 1.0 O 1:CYS405 4.4 29.4 1.0 C 1:CYS405 4.5 28.5 1.0 CB 1:ILE404 4.6 34.4 1.0 CD 1:PRO203 4.6 31.7 1.0 CB 1:LEU407 4.6 29.4 1.0 N 1:ILE404 4.6 34.1 1.0 C 1:ILE404 4.7 40.9 1.0 CD1 1:ILE185 4.8 32.5 1.0 SG 1:CYS362 4.9 40.1 1.0 CA 1:ILE404 4.9 32.4 1.0 SG 1:CYS365 4.9 27.0 1.0 CB 1:PRO203 4.9 30.5 1.0 CB 1:CYS365 5.0 18.6 1.0

Iron binding site 5 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 2:Fe300 b:0.6 occ:1.00 FE1 2:FES300 0.0 0.6 1.0 S2 2:FES300 2.2 55.4 1.0 S1 2:FES300 2.2 73.4 1.0 SG 2:CYS108 2.3 64.1 1.0 SG 2:CYS103 2.3 47.6 1.0 FE2 2:FES300 3.0 72.9 1.0 CB 2:CYS108 3.3 48.7 1.0 CB 2:CYS103 3.3 41.8 1.0 OG1 2:THR105 3.6 57.4 1.0 N 2:CYS108 4.1 45.4 1.0 CA 2:CYS144 4.3 39.8 1.0 CA 2:CYS108 4.3 46.8 1.0 N 2:LEU145 4.3 36.6 1.0 SD 2:MET153 4.6 69.6 1.0 CA 2:CYS103 4.6 43.1 1.0 C 2:CYS103 4.7 36.9 1.0 SG 2:CYS144 4.7 62.0 1.0 O 2:CYS103 4.7 45.5 1.0 CB 2:CYS144 4.8 50.3 1.0 CG 2:MET153 4.8 62.5 1.0 C 2:CYS144 4.9 38.8 1.0 SG 2:CYS148 4.9 57.1 1.0 N 2:THR105 4.9 41.5 1.0 CB 2:THR105 4.9 42.0 1.0

Iron binding site 6 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 2:Fe300 b:72.9 occ:1.00 FE2 2:FES300 0.0 72.9 1.0 S2 2:FES300 2.2 55.4 1.0 S1 2:FES300 2.2 73.4 1.0 SG 2:CYS148 2.3 57.1 1.0 SG 2:CYS144 2.3 62.0 1.0 FE1 2:FES300 3.0 0.6 1.0 CB 2:CYS144 3.4 50.3 1.0 CB 2:CYS148 3.6 54.2 1.0 N 2:GLY146 3.8 42.5 1.0 CA 2:CYS144 3.8 39.8 1.0 N 2:LEU145 3.9 36.6 1.0 CA 2:CYS148 3.9 49.8 1.0 N 2:CYS148 4.1 52.2 1.0 N 2:ALA147 4.1 47.9 1.0 C 2:CYS144 4.2 38.8 1.0 OG1 2:THR105 4.3 57.4 1.0 N 1:GLY103 4.3 47.3 1.0 CA 2:GLY146 4.3 39.1 1.0 CA 1:PRO102 4.4 45.6 1.0 C 2:ALA147 4.6 53.2 1.0 SG 2:CYS103 4.6 47.6 1.0 C 2:GLY146 4.7 45.6 1.0 C 2:LEU145 4.7 42.5 1.0 CB 2:PRO107 4.9 48.9 1.0 CA 2:LEU145 4.9 38.1 1.0 SG 2:CYS108 4.9 64.1 1.0 CG 2:PRO107 4.9 39.8 1.0 C 1:PRO102 4.9 49.4 1.0 O 1:GLU101 4.9 57.1 1.0 CA 2:ALA147 5.0 47.6 1.0

Iron binding site 7 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:82.8 occ:1.00 FE1 3:SF4801 0.0 82.8 1.0 S3 3:SF4801 2.3 82.8 1.0 S2 3:SF4801 2.3 82.8 1.0 S4 3:SF4801 2.3 82.8 1.0 SG 3:CYS114 2.3 32.5 1.0 FE4 3:SF4801 2.7 82.8 1.0 FE3 3:SF4801 2.7 82.8 1.0 FE2 3:SF4801 2.7 82.8 1.0 CB 3:CYS114 3.3 27.6 1.0 S1 3:SF4801 3.9 82.8 1.0 CG 3:GLN117 3.9 25.2 1.0 NE2 3:HIS101 4.3 54.0 1.0 CB 3:LEU116 4.4 22.0 1.0 CD 3:GLN117 4.4 25.2 1.0 N 3:GLN117 4.4 63.4 1.0 CG 3:GLN110 4.5 26.0 1.0 NE2 3:GLN117 4.5 31.7 1.0 CB 3:GLN110 4.6 23.2 1.0 N 3:GLY206 4.7 27.5 1.0 CA 3:CYS114 4.7 29.9 1.0 SG 3:CYS108 4.7 21.9 1.0 CD2 3:LEU116 4.7 16.4 1.0 CB 3:GLN117 4.7 36.0 1.0 SG 3:CYS105 4.8 36.3 1.0 CA 3:VAL205 4.8 21.7 1.0 CG 3:LEU116 5.0 26.1 1.0

Iron binding site 8 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:82.8 occ:1.00 FE2 3:SF4801 0.0 82.8 1.0 S4 3:SF4801 2.3 82.8 1.0 S3 3:SF4801 2.3 82.8 1.0 S1 3:SF4801 2.3 82.8 1.0 SG 3:CYS105 2.3 36.3 1.0 FE3 3:SF4801 2.7 82.8 1.0 FE1 3:SF4801 2.7 82.8 1.0 FE4 3:SF4801 2.7 82.8 1.0 CB 3:CYS105 3.4 16.6 1.0 CA 3:CYS105 3.5 16.5 1.0 NE2 3:GLN117 3.5 31.7 1.0 N 3:CYS105 3.8 24.4 1.0 S2 3:SF4801 3.9 82.8 1.0 CG 3:GLN117 3.9 25.2 1.0 CD 3:GLN117 4.1 25.2 1.0 CE 4:MET342 4.2 17.2 1.0 NE2 3:HIS101 4.3 54.0 1.0 C 3:ASP104 4.6 19.9 1.0 CD2 3:HIS101 4.7 46.4 1.0 C 3:CYS105 4.8 22.7 1.0 SG 3:CYS114 4.8 32.5 1.0 SG 3:CYS108 4.8 21.9 1.0 CB 3:CYS108 4.9 17.7 1.0 CG1 4:ILE346 4.9 25.5 1.0

Iron binding site 9 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:82.8 occ:1.00 FE3 3:SF4801 0.0 82.8 1.0 NE2 3:HIS101 1.9 54.0 1.0 S2 3:SF4801 2.3 82.8 1.0 S1 3:SF4801 2.3 82.8 1.0 S4 3:SF4801 2.3 82.8 1.0 FE2 3:SF4801 2.7 82.8 1.0 FE1 3:SF4801 2.7 82.8 1.0 FE4 3:SF4801 2.7 82.8 1.0 CE1 3:HIS101 2.9 66.7 1.0 CD2 3:HIS101 2.9 46.4 1.0 S3 3:SF4801 3.9 82.8 1.0 ND1 3:HIS101 4.0 41.6 1.0 CG 3:HIS101 4.1 59.7 1.0 CD2 3:LEU116 4.2 16.4 1.0 O 3:PRO102 4.6 31.1 1.0 CE 4:MET342 4.6 17.2 1.0 SG 3:CYS105 4.7 36.3 1.0 CG 3:ARG152 4.8 50.7 1.0 SG 3:CYS114 4.8 32.5 1.0 CB 3:ARG152 4.8 40.9 1.0 SG 3:CYS108 4.8 21.9 1.0 CD 3:ARG152 5.0 68.8 1.0

Iron binding site 10 out of 28 in the Complex I During Turnover, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Complex I During Turnover, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:82.8 occ:1.00 FE4 3:SF4801 0.0 82.8 1.0 S2 3:SF4801 2.3 82.8 1.0 S3 3:SF4801 2.3 82.8 1.0 S1 3:SF4801 2.3 82.8 1.0 SG 3:CYS108 2.3 21.9 1.0 FE1 3:SF4801 2.7 82.8 1.0 FE2 3:SF4801 2.7 82.8 1.0 FE3 3:SF4801 2.7 82.8 1.0 CB 3:CYS108 3.1 17.7 1.0 S4 3:SF4801 3.9 82.8 1.0 CB 3:GLN110 4.2 23.2 1.0 N 3:GLY206 4.3 27.5 1.0 CD 3:ARG152 4.4 68.8 1.0 CA 3:CYS105 4.5 16.5 1.0 NE2 3:HIS101 4.6 54.0 1.0 CA 3:CYS108 4.6 20.9 1.0 CA 3:GLY206 4.6 23.5 1.0 SG 3:CYS114 4.7 32.5 1.0 N 3:GLY111 4.7 23.2 1.0 N 3:CYS105 4.8 24.4 1.0 NE 3:ARG152 4.8 58.6 1.0 SG 3:CYS105 4.9 36.3 1.0 O 3:ASP104 4.9 22.8 1.0 C 3:ASP104 4.9 19.9 1.0 C 3:GLN110 4.9 26.7 1.0 CA 3:GLN110 4.9 23.3 1.0 CG 3:GLN110 5.0 26.0 1.0 N 3:GLN110 5.0 23.7 1.0

D.Kampjut, L.A.Sazanov. The Coupling Mechanism of Mammalian Respiratory Complex I. Science V. 370 2020.
ISSN: ESSN 1095-9203
PubMed: 32972993
DOI: 10.1126/SCIENCE.ABC4209