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Iron in PDB 6zku: Deactive Complex I, OPEN3

Enzymatic activity of Deactive Complex I, OPEN3

All present enzymatic activity of Deactive Complex I, OPEN3:
1.6.99.3; 7.1.1.2;

Other elements in 6zku:

The structure of Deactive Complex I, OPEN3 also contains other interesting chemical elements:

Potassium (K) 1 atom
Zinc (Zn) 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 Deactive Complex I, OPEN3 (pdb code 6zku). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Deactive Complex I, OPEN3, PDB code: 6zku:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 6zku

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Iron binding site 1 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe500

b:17.1
occ:1.00
FE1 1:SF4500 0.0 17.1 1.0
S2 1:SF4500 2.3 14.9 1.0
S3 1:SF4500 2.3 27.4 1.0
S4 1:SF4500 2.3 58.3 1.0
SG 1:CYS365 2.3 28.8 1.0
FE2 1:SF4500 2.7 32.7 1.0
FE3 1:SF4500 2.7 22.4 1.0
CB 1:CYS365 2.8 6.4 1.0
FE4 1:SF4500 2.8 27.2 1.0
OG 1:SER358 3.5 13.6 1.0
S1 1:SF4500 4.2 80.1 1.0
CA 1:CYS365 4.2 16.2 1.0
CD2 1:LEU407 4.3 28.8 1.0
N 1:CYS359 4.4 24.5 1.0
CB 1:SER358 4.6 19.9 1.0
C 1:CYS365 4.7 18.8 1.0
CA 1:SER358 4.7 23.1 1.0
N 1:ARG366 4.8 17.6 1.0
N 1:GLY360 4.8 23.3 1.0
CB 1:LEU407 4.8 15.7 1.0
C 1:SER358 4.9 29.5 1.0
SG 1:CYS362 5.0 49.3 1.0
N 1:GLY408 5.0 27.6 1.0
N 1:CYS365 5.0 15.1 1.0
CG 1:LEU407 5.0 25.9 1.0

Iron binding site 2 out of 28 in 6zku

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Iron binding site 2 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe500

b:32.7
occ:1.00
FE2 1:SF4500 0.0 32.7 1.0
S3 1:SF4500 2.3 27.4 1.0
S1 1:SF4500 2.3 80.1 1.0
S4 1:SF4500 2.4 58.3 1.0
FE3 1:SF4500 2.4 22.4 1.0
FE4 1:SF4500 2.5 27.2 1.0
FE1 1:SF4500 2.7 17.1 1.0
SG 1:CYS362 3.0 49.3 1.0
N 1:CYS362 3.4 15.3 1.0
S2 1:SF4500 3.8 14.9 1.0
CB 1:CYS362 3.8 11.6 1.0
CA 1:CYS362 4.1 12.2 1.0
CB 1:CYS365 4.1 6.4 1.0
CB 1:GLN361 4.2 13.7 1.0
N 1:GLN361 4.2 19.6 1.0
O 1:CYS362 4.3 13.5 1.0
C 1:GLN361 4.4 17.1 1.0
CA 1:GLN361 4.5 36.1 1.0
C 1:CYS362 4.6 13.1 1.0
SG 1:CYS365 4.6 28.8 1.0
N 1:ILE404 4.7 21.9 1.0
CB 1:ILE404 4.7 22.2 1.0
CD1 1:ILE404 4.9 13.4 1.0
SG 1:CYS359 4.9 30.7 1.0
OE1 1:GLN361 5.0 18.6 1.0
CG1 1:ILE404 5.0 17.8 1.0

Iron binding site 3 out of 28 in 6zku

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Iron binding site 3 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe500

b:22.4
occ:1.00
FE3 1:SF4500 0.0 22.4 1.0
S4 1:SF4500 2.3 58.3 1.0
S1 1:SF4500 2.3 80.1 1.0
S2 1:SF4500 2.4 14.9 1.0
FE4 1:SF4500 2.4 27.2 1.0
FE2 1:SF4500 2.4 32.7 1.0
FE1 1:SF4500 2.7 17.1 1.0
SG 1:CYS359 2.9 30.7 1.0
S3 1:SF4500 3.7 27.4 1.0
N 1:CYS359 3.8 24.5 1.0
CB 1:CYS359 3.9 16.1 1.0
CD 1:PRO203 3.9 22.9 1.0
N 1:GLN361 4.1 19.6 1.0
CB 1:GLN361 4.1 13.7 1.0
CA 1:CYS359 4.2 21.1 1.0
N 1:GLY360 4.3 23.3 1.0
CG 1:PRO203 4.3 19.8 1.0
C 1:CYS359 4.5 22.1 1.0
CD1 1:ILE185 4.5 20.4 1.0
OE1 1:GLN361 4.6 18.6 1.0
CA 1:GLN361 4.7 36.1 1.0
SG 1:CYS405 4.7 25.2 1.0
CG1 1:ILE185 4.8 18.3 1.0
N 1:CYS362 4.9 15.3 1.0
C 1:SER358 5.0 29.5 1.0
SG 1:CYS365 5.0 28.8 1.0

Iron binding site 4 out of 28 in 6zku

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Iron binding site 4 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe500

b:27.2
occ:1.00
FE4 1:SF4500 0.0 27.2 1.0
S2 1:SF4500 2.3 14.9 1.0
S1 1:SF4500 2.3 80.1 1.0
S3 1:SF4500 2.3 27.4 1.0
FE3 1:SF4500 2.4 22.4 1.0
FE2 1:SF4500 2.5 32.7 1.0
FE1 1:SF4500 2.8 17.1 1.0
SG 1:CYS405 3.0 25.2 1.0
N 1:CYS405 3.7 14.1 1.0
S4 1:SF4500 3.8 58.3 1.0
CB 1:CYS405 3.9 16.2 1.0
CA 1:CYS405 4.2 18.2 1.0
CG 1:PRO203 4.3 19.8 1.0
O 1:CYS405 4.3 39.0 1.0
C 1:CYS405 4.5 19.4 1.0
N 1:ILE404 4.6 21.9 1.0
CB 1:LEU407 4.6 15.7 1.0
CB 1:ILE404 4.7 22.2 1.0
CD 1:PRO203 4.7 22.9 1.0
C 1:ILE404 4.7 20.1 1.0
CD1 1:ILE185 4.8 20.4 1.0
SG 1:CYS362 4.9 49.3 1.0
CA 1:ILE404 4.9 20.2 1.0
SG 1:CYS365 4.9 28.8 1.0
CB 1:CYS365 4.9 6.4 1.0

Iron binding site 5 out of 28 in 6zku

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Iron binding site 5 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe300

b:0.4
occ:1.00
FE1 2:FES300 0.0 0.4 1.0
S1 2:FES300 2.2 46.4 1.0
S2 2:FES300 2.2 43.2 1.0
SG 2:CYS108 2.3 52.0 1.0
SG 2:CYS103 2.3 35.6 1.0
FE2 2:FES300 3.0 63.0 1.0
CB 2:CYS108 3.3 41.0 1.0
CB 2:CYS103 3.3 29.6 1.0
OG1 2:THR105 3.8 45.2 1.0
N 2:CYS108 4.2 33.2 1.0
CA 2:CYS108 4.3 34.6 1.0
CA 2:CYS144 4.4 25.9 1.0
N 2:LEU145 4.4 24.4 1.0
CA 2:CYS103 4.6 30.9 1.0
C 2:CYS103 4.6 24.7 1.0
O 2:CYS103 4.6 40.8 1.0
SD 2:MET153 4.6 68.0 1.0
SG 2:CYS144 4.6 49.8 1.0
N 2:THR105 4.8 29.3 1.0
CB 2:CYS144 4.8 33.6 1.0
SG 2:CYS148 4.9 36.3 1.0
C 2:CYS144 4.9 26.6 1.0
CG 2:MET153 5.0 50.4 1.0

Iron binding site 6 out of 28 in 6zku

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Iron binding site 6 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe300

b:63.0
occ:1.00
FE2 2:FES300 0.0 63.0 1.0
S2 2:FES300 2.2 43.2 1.0
S1 2:FES300 2.2 46.4 1.0
SG 2:CYS148 2.3 36.3 1.0
SG 2:CYS144 2.3 49.8 1.0
FE1 2:FES300 3.0 0.4 1.0
CB 2:CYS144 3.5 33.6 1.0
CB 2:CYS148 3.7 40.8 1.0
N 2:GLY146 3.9 27.7 1.0
CA 2:CYS144 3.9 25.9 1.0
CA 2:CYS148 4.0 46.4 1.0
N 2:LEU145 4.0 24.4 1.0
N 2:CYS148 4.1 45.7 1.0
N 2:ALA147 4.3 35.7 1.0
OG1 2:THR105 4.3 45.2 1.0
N 1:GLY103 4.3 28.1 1.0
C 2:CYS144 4.4 26.6 1.0
CA 1:PRO102 4.5 30.8 1.0
CA 2:GLY146 4.5 26.9 1.0
SG 2:CYS103 4.6 35.6 1.0
C 2:ALA147 4.7 41.0 1.0
C 2:GLY146 4.8 33.5 1.0
C 2:LEU145 4.8 30.3 1.0
SG 2:CYS108 4.9 52.0 1.0
C 1:PRO102 5.0 29.6 1.0
CA 2:LEU145 5.0 25.9 1.0

Iron binding site 7 out of 28 in 6zku

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Iron binding site 7 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:70.6
occ:1.00
FE1 3:SF4801 0.0 70.6 1.0
S2 3:SF4801 2.3 70.6 1.0
S3 3:SF4801 2.3 70.6 1.0
S4 3:SF4801 2.3 70.6 1.0
SG 3:CYS114 2.3 20.3 1.0
FE4 3:SF4801 2.7 70.6 1.0
FE3 3:SF4801 2.7 70.6 1.0
FE2 3:SF4801 2.7 70.6 1.0
CB 3:CYS114 3.3 15.4 1.0
S1 3:SF4801 3.9 70.6 1.0
CG 3:GLN117 4.2 13.1 1.0
NE2 3:HIS101 4.3 41.8 1.0
CB 3:LEU116 4.4 9.8 1.0
CG 3:GLN110 4.5 13.8 1.0
CB 3:GLN110 4.5 9.3 1.0
CD 3:GLN117 4.6 13.0 1.0
N 3:GLN117 4.6 51.2 1.0
NE2 3:GLN117 4.6 12.9 1.0
N 3:GLY206 4.6 3.9 1.0
SG 3:CYS108 4.7 9.7 1.0
CA 3:CYS114 4.7 17.8 1.0
SG 3:CYS105 4.8 24.1 1.0
CA 3:VAL205 4.8 9.5 1.0
CD2 3:LEU116 4.9 4.3 1.0
CB 3:VAL205 4.9 20.3 1.0
CB 3:GLN117 4.9 23.8 1.0

Iron binding site 8 out of 28 in 6zku

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Iron binding site 8 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:70.6
occ:1.00
FE2 3:SF4801 0.0 70.6 1.0
S3 3:SF4801 2.3 70.6 1.0
S4 3:SF4801 2.3 70.6 1.0
S1 3:SF4801 2.3 70.6 1.0
SG 3:CYS105 2.3 24.1 1.0
FE4 3:SF4801 2.7 70.6 1.0
FE3 3:SF4801 2.7 70.6 1.0
FE1 3:SF4801 2.7 70.6 1.0
CB 3:CYS105 3.4 4.4 1.0
CA 3:CYS105 3.5 5.9 1.0
NE2 3:GLN117 3.6 12.9 1.0
N 3:CYS105 3.9 6.4 1.0
S2 3:SF4801 3.9 70.6 1.0
CG 3:GLN117 4.1 13.1 1.0
CE 4:MET342 4.1 5.0 1.0
CD 3:GLN117 4.2 13.0 1.0
NE2 3:HIS101 4.2 41.8 1.0
CD2 3:HIS101 4.7 28.6 1.0
C 3:ASP104 4.7 7.7 1.0
SG 3:CYS108 4.8 9.7 1.0
CG1 4:ILE346 4.8 13.3 1.0
SG 3:CYS114 4.8 20.3 1.0
CB 3:CYS108 4.9 11.8 1.0
C 3:CYS105 4.9 10.5 1.0

Iron binding site 9 out of 28 in 6zku

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Iron binding site 9 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:70.6
occ:1.00
FE3 3:SF4801 0.0 70.6 1.0
NE2 3:HIS101 1.9 41.8 1.0
S2 3:SF4801 2.3 70.6 1.0
S1 3:SF4801 2.3 70.6 1.0
S4 3:SF4801 2.3 70.6 1.0
FE2 3:SF4801 2.7 70.6 1.0
FE4 3:SF4801 2.7 70.6 1.0
FE1 3:SF4801 2.7 70.6 1.0
CE1 3:HIS101 2.8 54.5 1.0
CD2 3:HIS101 3.0 28.6 1.0
S3 3:SF4801 3.9 70.6 1.0
ND1 3:HIS101 4.0 29.5 1.0
CG 3:HIS101 4.1 47.5 1.0
CD2 3:LEU116 4.3 4.3 1.0
CE 4:MET342 4.6 5.0 1.0
CG 3:ARG152 4.6 38.5 1.0
O 3:PRO102 4.7 27.3 1.0
CB 3:ARG152 4.8 28.7 1.0
SG 3:CYS105 4.8 24.1 1.0
SG 3:CYS114 4.8 20.3 1.0
SG 3:CYS108 4.8 9.7 1.0
CD 3:ARG152 4.9 56.6 1.0
N 3:GLY206 5.0 3.9 1.0

Iron binding site 10 out of 28 in 6zku

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Iron binding site 10 out of 28 in the Deactive Complex I, OPEN3


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Deactive Complex I, OPEN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:70.6
occ:1.00
FE4 3:SF4801 0.0 70.6 1.0
S2 3:SF4801 2.3 70.6 1.0
S3 3:SF4801 2.3 70.6 1.0
S1 3:SF4801 2.3 70.6 1.0
SG 3:CYS108 2.3 9.7 1.0
FE1 3:SF4801 2.7 70.6 1.0
FE2 3:SF4801 2.7 70.6 1.0
FE3 3:SF4801 2.7 70.6 1.0
CB 3:CYS108 3.1 11.8 1.0
S4 3:SF4801 3.9 70.6 1.0
CB 3:GLN110 4.2 9.3 1.0
CD 3:ARG152 4.3 56.6 1.0
N 3:GLY206 4.4 3.9 1.0
CA 3:CYS105 4.5 5.9 1.0
NE2 3:HIS101 4.6 41.8 1.0
CA 3:CYS108 4.6 9.2 1.0
CA 3:GLY206 4.6 8.0 1.0
N 3:CYS105 4.7 6.4 1.0
NE 3:ARG152 4.7 46.4 1.0
SG 3:CYS114 4.8 20.3 1.0
SG 3:CYS105 4.8 24.1 1.0
N 3:GLY111 4.9 7.2 1.0
CG 3:ARG152 4.9 38.5 1.0
C 3:ASP104 4.9 7.7 1.0
N 3:GLN110 5.0 9.7 1.0
CA 3:GLN110 5.0 11.1 1.0
C 3:GLN110 5.0 11.7 1.0
CG 3:GLN110 5.0 13.8 1.0

Reference:

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
Page generated: Wed Aug 7 20:24:24 2024

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