Iron in PDB 6zkp: Native Complex I, OPEN1

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

The structure of Native Complex I, 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 Native Complex I, OPEN1 (pdb code 6zkp). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Native Complex I, OPEN1, PDB code: 6zkp:
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 Native Complex I, OPEN1


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe500 b:18.9 occ:1.00 FE1 1:SF4500 0.0 18.9 1.0 S2 1:SF4500 2.3 17.4 1.0 S3 1:SF4500 2.3 29.2 1.0 S4 1:SF4500 2.3 66.7 1.0 SG 1:CYS365 2.3 15.3 1.0 FE2 1:SF4500 2.7 34.4 1.0 FE3 1:SF4500 2.7 24.2 1.0 FE4 1:SF4500 2.8 29.0 1.0 CB 1:CYS365 2.8 16.9 1.0 OG 1:SER358 3.6 21.8 1.0 S1 1:SF4500 4.2 86.6 1.0 CA 1:CYS365 4.3 17.9 1.0 N 1:CYS359 4.5 20.1 1.0 CD2 1:LEU407 4.5 38.7 1.0 CB 1:SER358 4.7 21.6 1.0 CB 1:LEU407 4.7 17.5 1.0 C 1:CYS365 4.7 20.6 1.0 N 1:GLY360 4.8 12.5 1.0 N 1:ARG366 4.8 19.4 1.0 CA 1:SER358 4.9 24.9 1.0 SG 1:CYS362 4.9 29.7 1.0 N 1:GLY408 4.9 29.4 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe500 b:34.4 occ:1.00 FE2 1:SF4500 0.0 34.4 1.0 S3 1:SF4500 2.3 29.2 1.0 S1 1:SF4500 2.3 86.6 1.0 S4 1:SF4500 2.4 66.7 1.0 FE3 1:SF4500 2.5 24.2 1.0 FE4 1:SF4500 2.5 29.0 1.0 FE1 1:SF4500 2.7 18.9 1.0 SG 1:CYS362 3.0 29.7 1.0 N 1:CYS362 3.4 15.7 1.0 S2 1:SF4500 3.8 17.4 1.0 CB 1:CYS362 3.8 21.2 1.0 CB 1:GLN361 4.0 15.5 1.0 CA 1:CYS362 4.1 19.2 1.0 N 1:GLN361 4.2 17.4 1.0 CB 1:CYS365 4.2 16.9 1.0 O 1:CYS362 4.4 23.8 1.0 C 1:GLN361 4.4 18.0 1.0 CA 1:GLN361 4.4 37.8 1.0 CB 1:ILE404 4.6 24.0 1.0 C 1:CYS362 4.7 15.3 1.0 SG 1:CYS365 4.7 15.3 1.0 N 1:ILE404 4.7 23.6 1.0 CD1 1:ILE404 4.7 15.2 1.0 SG 1:CYS359 4.8 32.5 1.0 OE1 1:GLN361 4.8 17.6 1.0 CG1 1:ILE404 4.8 13.9 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe500 b:24.2 occ:1.00 FE3 1:SF4500 0.0 24.2 1.0 S4 1:SF4500 2.3 66.7 1.0 S1 1:SF4500 2.3 86.6 1.0 S2 1:SF4500 2.4 17.4 1.0 FE4 1:SF4500 2.4 29.0 1.0 FE2 1:SF4500 2.5 34.4 1.0 FE1 1:SF4500 2.7 18.9 1.0 SG 1:CYS359 2.9 32.5 1.0 S3 1:SF4500 3.7 29.2 1.0 CD 1:PRO203 3.9 21.7 1.0 CB 1:CYS359 3.9 17.9 1.0 N 1:CYS359 4.1 20.1 1.0 CB 1:GLN361 4.1 15.5 1.0 N 1:GLN361 4.2 17.4 1.0 CG 1:PRO203 4.3 21.6 1.0 N 1:GLY360 4.4 12.5 1.0 CA 1:CYS359 4.4 22.8 1.0 OE1 1:GLN361 4.6 17.6 1.0 CG1 1:ILE185 4.6 20.1 1.0 CD1 1:ILE185 4.7 22.1 1.0 C 1:CYS359 4.7 16.9 1.0 SG 1:CYS405 4.7 27.0 1.0 CA 1:GLN361 4.8 37.8 1.0 SG 1:CYS365 5.0 15.3 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Fe500 b:29.0 occ:1.00 FE4 1:SF4500 0.0 29.0 1.0 S2 1:SF4500 2.3 17.4 1.0 S1 1:SF4500 2.3 86.6 1.0 S3 1:SF4500 2.3 29.2 1.0 FE3 1:SF4500 2.4 24.2 1.0 FE2 1:SF4500 2.5 34.4 1.0 FE1 1:SF4500 2.8 18.9 1.0 SG 1:CYS405 3.0 27.0 1.0 N 1:CYS405 3.6 24.9 1.0 S4 1:SF4500 3.8 66.7 1.0 CB 1:CYS405 3.9 26.9 1.0 CA 1:CYS405 4.2 19.9 1.0 CG 1:PRO203 4.3 21.6 1.0 O 1:CYS405 4.5 31.5 1.0 C 1:CYS405 4.5 20.5 1.0 CB 1:ILE404 4.5 24.0 1.0 N 1:ILE404 4.6 23.6 1.0 CD 1:PRO203 4.7 21.7 1.0 C 1:ILE404 4.7 22.3 1.0 CB 1:LEU407 4.8 17.5 1.0 CD1 1:ILE185 4.8 22.1 1.0 CA 1:ILE404 4.9 21.9 1.0 SG 1:CYS365 4.9 15.3 1.0 SG 1:CYS362 4.9 29.7 1.0 CB 1:PRO203 4.9 20.0 1.0 N 1:LEU407 5.0 21.4 1.0 CB 1:CYS365 5.0 16.9 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 2:Fe300 b:0.1 occ:1.00 FE1 2:FES300 0.0 0.1 1.0 S2 2:FES300 2.2 45.5 1.0 S1 2:FES300 2.2 48.1 1.0 SG 2:CYS103 2.3 66.8 1.0 SG 2:CYS108 2.3 39.7 1.0 FE2 2:FES300 3.0 43.0 1.0 CB 2:CYS103 3.3 31.3 1.0 CB 2:CYS108 3.4 31.2 1.0 OG1 2:THR105 3.7 47.0 1.0 N 2:CYS108 4.2 35.0 1.0 CA 2:CYS108 4.4 36.4 1.0 CA 2:CYS144 4.4 27.6 1.0 N 2:LEU145 4.4 26.9 1.0 CA 2:CYS103 4.5 32.6 1.0 SD 2:MET153 4.5 56.5 1.0 O 2:CYS103 4.6 35.0 1.0 C 2:CYS103 4.6 26.5 1.0 SG 2:CYS144 4.7 51.6 1.0 CG 2:MET153 4.8 52.1 1.0 CB 2:CYS144 4.9 35.3 1.0 N 2:THR105 4.9 31.1 1.0 C 2:PRO107 4.9 34.1 1.0 SG 2:CYS148 4.9 45.4 1.0 C 2:CYS144 4.9 28.3 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 2:Fe300 b:43.0 occ:1.00 FE2 2:FES300 0.0 43.0 1.0 S2 2:FES300 2.2 45.5 1.0 S1 2:FES300 2.2 48.1 1.0 SG 2:CYS148 2.3 45.4 1.0 SG 2:CYS144 2.3 51.6 1.0 FE1 2:FES300 3.0 0.1 1.0 CB 2:CYS144 3.4 35.3 1.0 CB 2:CYS148 3.6 40.3 1.0 N 2:GLY146 3.7 29.5 1.0 CA 2:CYS144 3.8 27.6 1.0 CA 2:CYS148 3.9 39.3 1.0 N 2:CYS148 4.0 41.8 1.0 N 2:ALA147 4.2 37.5 1.0 N 2:LEU145 4.2 26.9 1.0 C 2:CYS144 4.2 28.3 1.0 CA 2:GLY146 4.2 28.6 1.0 OG1 2:THR105 4.3 47.0 1.0 N 1:GLY103 4.5 28.7 1.0 SG 2:CYS103 4.5 66.8 1.0 CA 1:PRO102 4.6 32.5 1.0 C 2:ALA147 4.7 42.8 1.0 C 2:GLY146 4.7 35.2 1.0 CB 2:PRO107 4.7 29.2 1.0 C 2:LEU145 4.8 32.1 1.0 CG 2:PRO107 4.8 29.4 1.0 SG 2:CYS108 4.9 39.7 1.0 O 2:CYS144 4.9 31.1 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:72.3 occ:1.00 FE1 3:SF4801 0.0 72.3 1.0 S3 3:SF4801 2.3 72.3 1.0 S2 3:SF4801 2.3 72.3 1.0 S4 3:SF4801 2.3 72.3 1.0 SG 3:CYS114 2.3 22.1 1.0 FE4 3:SF4801 2.7 72.3 1.0 FE2 3:SF4801 2.7 72.3 1.0 FE3 3:SF4801 2.7 72.3 1.0 CB 3:CYS114 3.3 17.1 1.0 S1 3:SF4801 3.9 72.3 1.0 CG 3:GLN117 4.2 14.8 1.0 NE2 3:HIS101 4.2 43.6 1.0 CB 3:LEU116 4.4 11.6 1.0 N 3:GLY206 4.6 8.6 1.0 N 3:GLN117 4.6 53.0 1.0 CD 3:GLN117 4.7 14.7 1.0 SG 3:CYS108 4.7 20.8 1.0 CA 3:CYS114 4.7 19.5 1.0 NE2 3:GLN117 4.7 15.5 1.0 CA 3:VAL205 4.8 11.3 1.0 SG 3:CYS105 4.8 25.9 1.0 CD2 3:LEU116 4.8 16.3 1.0 CB 3:GLN110 4.8 11.1 1.0 CG 3:GLN110 4.8 15.6 1.0 CB 3:VAL205 4.9 22.1 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:72.3 occ:1.00 FE2 3:SF4801 0.0 72.3 1.0 S3 3:SF4801 2.3 72.3 1.0 S4 3:SF4801 2.3 72.3 1.0 S1 3:SF4801 2.3 72.3 1.0 SG 3:CYS105 2.3 25.9 1.0 FE3 3:SF4801 2.7 72.3 1.0 FE4 3:SF4801 2.7 72.3 1.0 FE1 3:SF4801 2.7 72.3 1.0 CB 3:CYS105 3.4 6.2 1.0 CA 3:CYS105 3.5 1.9 1.0 NE2 3:GLN117 3.7 15.5 1.0 N 3:CYS105 3.8 4.4 1.0 S2 3:SF4801 3.9 72.3 1.0 CE 4:MET342 4.0 43.5 1.0 CG 3:GLN117 4.2 14.8 1.0 CD 3:GLN117 4.3 14.7 1.0 NE2 3:HIS101 4.4 43.6 1.0 C 3:ASP104 4.7 9.5 1.0 CD2 3:HIS101 4.7 37.8 1.0 SG 3:CYS108 4.8 20.8 1.0 SG 3:CYS114 4.8 22.1 1.0 C 3:CYS105 4.8 12.2 1.0 CG1 4:ILE346 4.9 15.0 1.0 CB 3:CYS108 4.9 13.9 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:72.3 occ:1.00 FE3 3:SF4801 0.0 72.3 1.0 NE2 3:HIS101 1.9 43.6 1.0 S2 3:SF4801 2.3 72.3 1.0 S1 3:SF4801 2.3 72.3 1.0 S4 3:SF4801 2.3 72.3 1.0 FE2 3:SF4801 2.7 72.3 1.0 FE1 3:SF4801 2.7 72.3 1.0 FE4 3:SF4801 2.7 72.3 1.0 CD2 3:HIS101 2.8 37.8 1.0 CE1 3:HIS101 3.0 56.2 1.0 S3 3:SF4801 3.9 72.3 1.0 CG 3:HIS101 4.0 49.3 1.0 ND1 3:HIS101 4.0 39.1 1.0 CD2 3:LEU116 4.3 16.3 1.0 CE 4:MET342 4.3 43.5 1.0 O 3:PRO102 4.5 29.6 1.0 SG 3:CYS105 4.7 25.9 1.0 CB 3:ARG152 4.8 30.5 1.0 CG 3:ARG152 4.8 40.2 1.0 SG 3:CYS108 4.8 20.8 1.0 SG 3:CYS114 4.8 22.1 1.0 N 3:GLY206 5.0 8.6 1.0

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


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Native Complex I, OPEN1 within 5.0Å range: probe atom residue distance (Å) B Occ 3:Fe801 b:72.3 occ:1.00 FE4 3:SF4801 0.0 72.3 1.0 S2 3:SF4801 2.3 72.3 1.0 S3 3:SF4801 2.3 72.3 1.0 S1 3:SF4801 2.3 72.3 1.0 SG 3:CYS108 2.3 20.8 1.0 FE2 3:SF4801 2.7 72.3 1.0 FE1 3:SF4801 2.7 72.3 1.0 FE3 3:SF4801 2.7 72.3 1.0 CB 3:CYS108 3.1 13.9 1.0 S4 3:SF4801 3.9 72.3 1.0 N 3:GLY206 4.3 8.6 1.0 CD 3:ARG152 4.4 58.3 1.0 CA 3:CYS105 4.5 1.9 1.0 CA 3:GLY206 4.5 11.9 1.0 NE2 3:HIS101 4.6 43.6 1.0 CB 3:GLN110 4.6 11.1 1.0 CA 3:CYS108 4.6 10.5 1.0 N 3:CYS105 4.6 4.4 1.0 SG 3:CYS114 4.7 22.1 1.0 SG 3:CYS105 4.8 25.9 1.0 N 3:GLY111 4.8 8.0 1.0 C 3:ASP104 4.9 9.5 1.0 O 3:ASP104 5.0 12.4 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