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Iron in PDB 7zdm: Complex I From Ovis Aries at PH5.5, Closed State

Enzymatic activity of Complex I From Ovis Aries at PH5.5, Closed State

All present enzymatic activity of Complex I From Ovis Aries at PH5.5, Closed State:
7.1.1.2;

Other elements in 7zdm:

The structure of Complex I From Ovis Aries at PH5.5, Closed State also contains other interesting chemical elements:

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

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 Complex I From Ovis Aries at PH5.5, Closed State (pdb code 7zdm). 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 From Ovis Aries at PH5.5, Closed State, PDB code: 7zdm:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 7zdm

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Iron binding site 1 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:10.1
occ:1.00
 FE1 1:SF4501 0.0 10.1 1.0
S4 1:SF4501 2.3 12.8 1.0
S2 1:SF4501 2.3 33.9 1.0
S3 1:SF4501 2.3 29.4 1.0
SG 1:CYS365 2.3 48.2 1.0
FE3 1:SF4501 2.6 11.8 1.0
FE4 1:SF4501 2.7 26.4 1.0
FE2 1:SF4501 2.7 7.0 1.0
CB 1:CYS365 3.0 24.9 1.0
OG 1:SER358 3.3 14.7 1.0
S1 1:SF4501 3.9 31.3 1.0
CD2 1:LEU407 4.0 32.6 1.0
CB 1:SER358 4.4 13.9 1.0
CA 1:CYS365 4.4 23.6 1.0
N 1:CYS359 4.6 17.9 1.0
SG 1:CYS362 4.6 28.8 1.0
CB 1:LEU407 4.6 14.4 1.0
N 1:GLY360 4.7 20.5 1.0
C 1:CYS365 4.8 29.3 1.0
CA 1:SER358 4.8 21.1 1.0
SG 1:CYS359 4.8 29.8 1.0
SG 1:CYS405 4.8 43.8 1.0
N 1:ARG366 4.9 19.5 1.0
O 1:CYS362 4.9 22.6 1.0
CG 1:LEU407 4.9 20.6 1.0

Iron binding site 2 out of 28 in 7zdm

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Iron binding site 2 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:7.0
occ:1.00
 FE2 1:SF4501 0.0 7.0 1.0
S4 1:SF4501 2.3 12.8 1.0
S1 1:SF4501 2.3 31.3 1.0
S3 1:SF4501 2.3 29.4 1.0
SG 1:CYS405 2.3 43.8 1.0
FE4 1:SF4501 2.6 26.4 1.0
FE1 1:SF4501 2.7 10.1 1.0
FE3 1:SF4501 2.8 11.8 1.0
CB 1:CYS405 3.4 25.1 1.0
S2 1:SF4501 3.9 33.9 1.0
N 1:CYS405 4.0 26.4 1.0
CB 1:LEU407 4.0 14.4 1.0
CA 1:CYS405 4.1 24.8 1.0
CD1 1:ILE185 4.4 22.1 1.0
C 1:CYS405 4.4 20.6 1.0
N 1:LEU407 4.5 16.3 1.0
CG 1:PRO203 4.5 23.6 1.0
O 1:CYS405 4.6 20.4 1.0
SG 1:CYS359 4.6 29.8 1.0
CA 1:LEU407 4.8 17.1 1.0
CD 1:PRO203 4.9 25.8 1.0
SG 1:CYS365 4.9 48.2 1.0
SG 1:CYS362 4.9 28.8 1.0
CD2 1:LEU407 4.9 32.6 1.0
N 1:GLY408 4.9 25.3 1.0
N 1:ALA406 5.0 18.5 1.0

Iron binding site 3 out of 28 in 7zdm

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Iron binding site 3 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:11.8
occ:1.00
 FE3 1:SF4501 0.0 11.8 1.0
S2 1:SF4501 2.3 33.9 1.0
S4 1:SF4501 2.3 12.8 1.0
S1 1:SF4501 2.3 31.3 1.0
SG 1:CYS362 2.3 28.8 1.0
FE1 1:SF4501 2.6 10.1 1.0
FE4 1:SF4501 2.7 26.4 1.0
FE2 1:SF4501 2.8 7.0 1.0
CB 1:CYS362 3.5 21.8 1.0
N 1:CYS362 3.7 20.7 1.0
S3 1:SF4501 3.9 29.4 1.0
O 1:CYS362 3.9 22.6 1.0
CA 1:CYS362 4.1 18.9 1.0
CB 1:CYS365 4.1 24.9 1.0
N 1:ILE404 4.3 22.7 1.0
C 1:CYS362 4.4 21.6 1.0
CB 1:ILE404 4.5 23.9 1.0
CB 1:THR403 4.5 22.5 1.0
SG 1:CYS365 4.5 48.2 1.0
N 1:CYS405 4.6 26.4 1.0
SG 1:CYS359 4.8 29.8 1.0
N 1:GLN361 4.8 23.8 1.0
SG 1:CYS405 4.8 43.8 1.0
C 1:GLN361 4.9 20.0 1.0
CG2 1:THR403 4.9 14.3 1.0
CA 1:ILE404 4.9 23.7 1.0
CG1 1:ILE404 5.0 27.2 1.0
CB 1:GLN361 5.0 14.2 1.0

Iron binding site 4 out of 28 in 7zdm

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Iron binding site 4 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:26.4
occ:1.00
 FE4 1:SF4501 0.0 26.4 1.0
S2 1:SF4501 2.3 33.9 1.0
S3 1:SF4501 2.3 29.4 1.0
S1 1:SF4501 2.3 31.3 1.0
SG 1:CYS359 2.3 29.8 1.0
FE2 1:SF4501 2.6 7.0 1.0
FE1 1:SF4501 2.7 10.1 1.0
FE3 1:SF4501 2.7 11.8 1.0
CB 1:CYS359 3.6 19.7 1.0
N 1:CYS359 3.8 17.9 1.0
N 1:GLY360 3.8 20.5 1.0
S4 1:SF4501 3.9 12.8 1.0
N 1:GLN361 3.9 23.8 1.0
CA 1:CYS359 4.1 18.7 1.0
C 1:CYS359 4.3 21.9 1.0
CD 1:PRO203 4.3 25.8 1.0
CB 1:GLN361 4.3 14.2 1.0
OG 1:SER358 4.5 14.7 1.0
N 1:CYS362 4.6 20.7 1.0
CA 1:GLN361 4.7 19.7 1.0
SG 1:CYS405 4.7 43.8 1.0
CA 1:GLY360 4.7 22.6 1.0
C 1:GLY360 4.8 25.4 1.0
CG 1:PRO203 4.8 23.6 1.0
CG1 1:ILE185 4.8 29.0 1.0
SG 1:CYS365 4.9 48.2 1.0
C 1:SER358 4.9 21.0 1.0
SG 1:CYS362 4.9 28.8 1.0
CD1 1:ILE185 4.9 22.1 1.0

Iron binding site 5 out of 28 in 7zdm

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Iron binding site 5 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe300

b:61.2
occ:1.00
 FE1 2:FES300 0.0 61.2 1.0
S2 2:FES300 2.2 70.6 1.0
S1 2:FES300 2.2 70.9 1.0
SG 2:CYS103 2.3 56.2 1.0
SG 2:CYS108 2.3 49.7 1.0
FE2 2:FES300 2.7 54.7 1.0
CB 2:CYS108 3.4 44.8 1.0
CB 2:CYS103 3.7 35.5 1.0
CA 2:CYS144 4.0 28.6 1.0
N 2:LEU145 4.3 24.6 1.0
N 2:CYS108 4.3 28.8 1.0
CB 2:CYS144 4.3 35.5 1.0
CA 2:CYS108 4.4 30.3 1.0
SG 2:CYS144 4.5 63.2 1.0
SG 2:CYS148 4.7 48.5 1.0
OG1 2:THR105 4.7 34.3 1.0
CB 2:THR105 4.7 31.6 1.0
O 2:CYS103 4.7 32.7 1.0
C 2:CYS144 4.7 27.5 1.0
CA 2:CYS148 4.8 34.0 1.0
C 2:CYS103 4.8 29.0 1.0
CA 2:CYS103 4.9 29.0 1.0
CG 2:MET153 4.9 57.5 1.0
N 2:THR105 4.9 22.9 1.0
N 2:CYS144 5.0 30.9 1.0
CB 2:CYS148 5.0 40.0 1.0

Iron binding site 6 out of 28 in 7zdm

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Iron binding site 6 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe300

b:54.7
occ:1.00
 FE2 2:FES300 0.0 54.7 1.0
S2 2:FES300 2.2 70.6 1.0
S1 2:FES300 2.2 70.9 1.0
SG 2:CYS148 2.3 48.5 1.0
SG 2:CYS144 2.3 63.2 1.0
FE1 2:FES300 2.7 61.2 1.0
CB 2:CYS144 3.1 35.5 1.0
CB 2:CYS148 3.4 40.0 1.0
CA 2:CYS144 3.6 28.6 1.0
N 2:LEU145 3.7 24.6 1.0
CA 2:CYS148 3.8 34.0 1.0
N 2:CYS148 3.9 30.7 1.0
N 2:GLY146 4.0 19.1 1.0
C 2:CYS144 4.1 27.5 1.0
N 2:ALA147 4.3 26.6 1.0
SG 2:CYS103 4.5 56.2 1.0
N 1:GLY103 4.5 35.8 1.0
C 2:ALA147 4.6 27.9 1.0
CA 1:PRO102 4.6 26.5 1.0
SG 2:CYS108 4.7 49.7 1.0
CA 2:GLY146 4.7 21.3 1.0
C 2:LEU145 4.8 22.4 1.0
CA 2:LEU145 4.8 21.5 1.0
CB 2:PRO107 4.9 41.6 1.0
C 2:GLY146 4.9 27.5 1.0
N 2:CYS144 5.0 30.9 1.0

Iron binding site 7 out of 28 in 7zdm

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Iron binding site 7 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:11.4
occ:1.00
 FE1 3:SF4801 0.0 11.4 1.0
S3 3:SF4801 2.3 34.4 1.0
S2 3:SF4801 2.3 32.9 1.0
S4 3:SF4801 2.3 21.9 1.0
SG 3:CYS114 2.3 33.0 1.0
FE3 3:SF4801 2.7 15.0 1.0
FE4 3:SF4801 2.7 11.4 1.0
FE2 3:SF4801 2.7 16.2 1.0
CB 3:CYS114 3.3 40.6 1.0
S1 3:SF4801 3.9 11.4 1.0
CG 3:GLN117 4.2 40.2 1.0
NE2 3:HIS101 4.3 18.2 1.0
NE2 3:GLN117 4.4 38.5 1.0
CD 3:GLN117 4.5 37.4 1.0
CB 3:GLN110 4.6 39.0 1.0
CB 3:LEU116 4.7 27.3 1.0
CA 3:CYS114 4.7 35.1 1.0
N 3:GLY206 4.8 25.6 1.0
SG 3:CYS108 4.8 27.3 1.0
SG 3:CYS105 4.8 31.5 1.0
N 3:GLN117 4.8 23.1 1.0
CD2 3:LEU116 4.9 30.3 1.0
CG 3:GLN110 4.9 39.4 1.0
CA 3:VAL205 4.9 26.1 1.0

Iron binding site 8 out of 28 in 7zdm

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Iron binding site 8 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:16.2
occ:1.00
 FE2 3:SF4801 0.0 16.2 1.0
S1 3:SF4801 2.3 11.4 1.0
S3 3:SF4801 2.3 34.4 1.0
S4 3:SF4801 2.3 21.9 1.0
SG 3:CYS105 2.3 31.5 1.0
FE4 3:SF4801 2.7 11.4 1.0
FE3 3:SF4801 2.7 15.0 1.0
FE1 3:SF4801 2.7 11.4 1.0
NE2 3:GLN117 3.3 38.5 1.0
CB 3:CYS105 3.4 26.2 1.0
CA 3:CYS105 3.6 23.9 1.0
S2 3:SF4801 3.9 32.9 1.0
N 3:CYS105 3.9 25.9 1.0
CD 3:GLN117 4.2 37.4 1.0
CG 3:GLN117 4.2 40.2 1.0
CE 4:MET342 4.3 59.3 1.0
NE2 3:HIS101 4.5 18.2 1.0
C 3:ASP104 4.6 24.5 1.0
CD2 3:HIS101 4.6 21.8 1.0
SG 3:CYS108 4.8 27.3 1.0
SG 3:CYS114 4.8 33.0 1.0
CB 3:CYS108 4.9 27.9 1.0
C 3:CYS105 4.9 22.6 1.0
O 3:ASP104 4.9 24.6 1.0

Iron binding site 9 out of 28 in 7zdm

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Iron binding site 9 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:15.0
occ:1.00
 FE3 3:SF4801 0.0 15.0 1.0
NE2 3:HIS101 2.0 18.2 1.0
S1 3:SF4801 2.3 11.4 1.0
S2 3:SF4801 2.3 32.9 1.0
S4 3:SF4801 2.3 21.9 1.0
FE1 3:SF4801 2.7 11.4 1.0
FE2 3:SF4801 2.7 16.2 1.0
FE4 3:SF4801 2.7 11.4 1.0
CD2 3:HIS101 2.8 21.8 1.0
CE1 3:HIS101 3.2 21.6 1.0
S3 3:SF4801 3.9 34.4 1.0
CG 3:HIS101 4.0 25.0 1.0
ND1 3:HIS101 4.2 22.6 1.0
CD2 3:LEU116 4.5 30.3 1.0
O 3:PRO102 4.7 126.1 1.0
CB 3:ARG152 4.8 14.8 1.0
SG 3:CYS114 4.8 33.0 1.0
SG 3:CYS105 4.8 31.5 1.0
SG 3:CYS108 4.8 27.3 1.0
CE 4:MET342 4.9 59.3 1.0
CG 3:ARG152 4.9 14.8 1.0
CD 3:ARG152 4.9 21.3 1.0

Iron binding site 10 out of 28 in 7zdm

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Iron binding site 10 out of 28 in the Complex I From Ovis Aries at PH5.5, Closed State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Complex I From Ovis Aries at PH5.5, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:11.4
occ:1.00
 FE4 3:SF4801 0.0 11.4 1.0
S2 3:SF4801 2.3 32.9 1.0
S1 3:SF4801 2.3 11.4 1.0
S3 3:SF4801 2.3 34.4 1.0
SG 3:CYS108 2.3 27.3 1.0
FE2 3:SF4801 2.7 16.2 1.0
FE1 3:SF4801 2.7 11.4 1.0
FE3 3:SF4801 2.7 15.0 1.0
CB 3:CYS108 3.2 27.9 1.0
S4 3:SF4801 3.9 21.9 1.0
CB 3:GLN110 4.3 39.0 1.0
N 3:GLY206 4.4 25.6 1.0
O 3:ASP104 4.5 24.6 1.0
CD 3:ARG152 4.5 21.3 1.0
CA 3:CYS105 4.5 23.9 1.0
CA 3:GLY206 4.6 29.4 1.0
NE2 3:HIS101 4.7 18.2 1.0
CA 3:CYS108 4.7 29.5 1.0
NH1 3:ARG152 4.8 19.7 1.0
SG 3:CYS105 4.8 31.5 1.0
C 3:ASP104 4.8 24.5 1.0
SG 3:CYS114 4.8 33.0 1.0
N 3:CYS105 4.8 25.9 1.0

Reference:

V.Kravchuk, O.Petrova, D.Kampjut, A.Wojciechowska-Bason, Z.Breese, L.Sazanov. A Universal Coupling Mechanism of Respiratory Complex I. Nature V. 609 808 2022.
ISSN: ESSN 1476-4687
PubMed: 36104567
DOI: 10.1038/S41586-022-05199-7
Page generated: Thu Aug 7 11:46:32 2025

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