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Iron in PDB 7qsl: Bovine Complex I in Lipid Nanodisc, Active-Apo

Enzymatic activity of Bovine Complex I in Lipid Nanodisc, Active-Apo

All present enzymatic activity of Bovine Complex I in Lipid Nanodisc, Active-Apo:
1.6.5.3; 1.6.99.3; 7.1.1.2;

Other elements in 7qsl:

The structure of Bovine Complex I in Lipid Nanodisc, Active-Apo also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Magnesium (Mg) 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 Bovine Complex I in Lipid Nanodisc, Active-Apo (pdb code 7qsl). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Bovine Complex I in Lipid Nanodisc, Active-Apo, PDB code: 7qsl:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 7qsl

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Iron binding site 1 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:30.9
occ:1.00
 FE1 B:SF4201 0.0 30.9 1.0
SG B:CYS119 2.2 26.3 1.0
S4 B:SF4201 2.3 30.9 1.0
S2 B:SF4201 2.3 30.9 1.0
S3 B:SF4201 2.3 30.9 1.0
FE3 B:SF4201 2.7 30.9 1.0
FE2 B:SF4201 2.7 30.9 1.0
FE4 B:SF4201 2.7 30.9 1.0
CB B:CYS119 3.2 26.3 1.0
O B:HOH342 3.7 25.1 1.0
S1 B:SF4201 3.9 30.9 1.0
OG1 B:THR91 4.0 28.3 1.0
N B:CYS119 4.0 26.3 1.0
CA B:CYS119 4.2 26.3 1.0
SG B:CYS149 4.4 25.4 1.0
CQ2 D:2MR85 4.4 28.4 1.0
O B:HOH304 4.6 27.3 1.0
CE2 B:TYR126 4.8 26.1 1.0
SG B:CYS55 4.8 27.8 1.0
N B:THR91 4.8 28.3 1.0
SG B:CYS54 4.9 28.1 1.0

Iron binding site 2 out of 28 in 7qsl

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Iron binding site 2 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:30.9
occ:1.00
 FE2 B:SF4201 0.0 30.9 1.0
S1 B:SF4201 2.3 30.9 1.0
SG B:CYS149 2.3 25.4 1.0
S3 B:SF4201 2.3 30.9 1.0
S4 B:SF4201 2.3 30.9 1.0
FE4 B:SF4201 2.7 30.9 1.0
FE1 B:SF4201 2.7 30.9 1.0
FE3 B:SF4201 2.7 30.9 1.0
CB B:CYS149 3.3 25.4 1.0
CA B:CYS149 3.4 25.4 1.0
C B:CYS149 3.6 25.4 1.0
S2 B:SF4201 3.9 30.9 1.0
O B:CYS149 4.0 25.4 1.0
N B:PRO150 4.0 27.8 1.0
O B:HOH342 4.0 25.1 1.0
NE D:ARG105 4.3 26.8 1.0
CD2 D:HIS190 4.3 28.1 1.0
CA B:PRO150 4.4 27.8 1.0
NE2 D:HIS190 4.5 28.1 1.0
SG B:CYS55 4.5 27.8 1.0
SG B:CYS119 4.6 26.3 1.0
CD B:PRO150 4.7 27.8 1.0
N B:CYS149 4.7 25.4 1.0
SG B:CYS54 4.8 28.1 1.0
CB B:CYS54 4.8 28.1 1.0
O B:GLY148 4.8 25.9 1.0
NH2 D:ARG105 4.9 26.8 1.0
CD D:ARG105 5.0 26.8 1.0
CB B:PRO150 5.0 27.8 1.0

Iron binding site 3 out of 28 in 7qsl

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Iron binding site 3 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:30.9
occ:1.00
 FE3 B:SF4201 0.0 30.9 1.0
S4 B:SF4201 2.3 30.9 1.0
SG B:CYS54 2.3 28.1 1.0
S2 B:SF4201 2.3 30.9 1.0
S1 B:SF4201 2.3 30.9 1.0
CB B:CYS54 2.6 28.1 1.0
FE1 B:SF4201 2.7 30.9 1.0
FE4 B:SF4201 2.7 30.9 1.0
FE2 B:SF4201 2.7 30.9 1.0
CQ2 D:2MR85 3.5 28.4 1.0
NE2 D:HIS190 3.7 28.1 1.0
S3 B:SF4201 3.9 30.9 1.0
CA B:CYS54 3.9 28.1 1.0
N B:CYS54 4.0 28.1 1.0
CG D:ARG105 4.1 26.8 1.0
CD2 D:HIS190 4.4 28.1 1.0
N B:CYS55 4.5 27.8 1.0
C B:CYS54 4.6 28.1 1.0
CD D:ARG105 4.7 26.8 1.0
SG B:CYS149 4.7 25.4 1.0
NE D:ARG105 4.7 26.8 1.0
SG B:CYS119 4.7 26.3 1.0
CB D:ARG105 4.7 26.8 1.0
CE1 D:HIS190 4.8 28.1 1.0
NH2 D:2MR85 4.8 28.4 1.0
SG B:CYS55 4.9 27.8 1.0

Iron binding site 4 out of 28 in 7qsl

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Iron binding site 4 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe201

b:30.9
occ:1.00
 FE4 B:SF4201 0.0 30.9 1.0
SG B:CYS55 2.3 27.8 1.0
S3 B:SF4201 2.3 30.9 1.0
S2 B:SF4201 2.3 30.9 1.0
S1 B:SF4201 2.3 30.9 1.0
FE2 B:SF4201 2.7 30.9 1.0
FE3 B:SF4201 2.7 30.9 1.0
FE1 B:SF4201 2.7 30.9 1.0
CB B:CYS55 3.5 27.8 1.0
N B:CYS55 3.5 27.8 1.0
CB B:CYS54 3.8 28.1 1.0
S4 B:SF4201 3.9 30.9 1.0
CA B:CYS55 4.0 27.8 1.0
O B:HOH304 4.0 27.3 1.0
C B:CYS54 4.4 28.1 1.0
CA B:CYS54 4.5 28.1 1.0
SG B:CYS54 4.5 28.1 1.0
CB B:PRO150 4.6 27.8 1.0
N B:CYS54 4.6 28.1 1.0
CA B:PRO150 4.6 27.8 1.0
CA B:GLY90 4.7 28.6 1.0
SG B:CYS119 4.8 26.3 1.0
SG B:CYS149 4.9 25.4 1.0
N B:PRO150 4.9 27.8 1.0
CA B:GLY117 5.0 26.6 1.0

Iron binding site 5 out of 28 in 7qsl

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Iron binding site 5 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe301

b:46.9
occ:1.00
 FE1 E:FES301 0.0 46.9 1.0
S2 E:FES301 2.2 46.9 1.0
S1 E:FES301 2.2 46.9 1.0
SG E:CYS108 2.2 42.9 1.0
SG E:CYS103 2.3 42.8 1.0
FE2 E:FES301 2.7 46.9 1.0
CB E:CYS108 3.2 42.9 1.0
CB E:CYS103 3.3 42.8 1.0
CA E:CYS144 4.1 41.3 1.0
N E:CYS108 4.1 42.9 1.0
CA E:CYS108 4.2 42.9 1.0
N E:LEU145 4.2 42.6 1.0
SG E:CYS144 4.4 41.3 1.0
CA E:CYS103 4.5 42.8 1.0
CB E:CYS144 4.6 41.3 1.0
O E:CYS103 4.6 42.8 1.0
C E:CYS103 4.6 42.8 1.0
CG E:MET153 4.7 46.2 1.0
C E:CYS144 4.7 41.3 1.0
SG E:CYS148 4.8 45.2 1.0
CA E:CYS148 4.8 45.2 1.0
CB E:THR105 4.9 40.9 1.0
N E:CYS144 4.9 41.3 1.0
O E:THR105 4.9 40.9 1.0
SD E:MET153 5.0 46.2 1.0

Iron binding site 6 out of 28 in 7qsl

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Iron binding site 6 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe301

b:46.9
occ:1.00
 FE2 E:FES301 0.0 46.9 1.0
S2 E:FES301 2.2 46.9 1.0
S1 E:FES301 2.2 46.9 1.0
SG E:CYS144 2.3 41.3 1.0
SG E:CYS148 2.3 45.2 1.0
FE1 E:FES301 2.7 46.9 1.0
CB E:CYS144 3.3 41.3 1.0
CB E:CYS148 3.3 45.2 1.0
CA E:CYS148 3.7 45.2 1.0
CA E:CYS144 3.7 41.3 1.0
N E:CYS148 3.8 45.2 1.0
N E:LEU145 3.9 42.6 1.0
N E:GLY146 4.1 42.9 1.0
N F:GLY103 4.2 42.7 1.0
N E:ALA147 4.2 44.8 1.0
C E:CYS144 4.2 41.3 1.0
SG E:CYS103 4.3 42.8 1.0
C E:ALA147 4.4 44.8 1.0
SG E:CYS108 4.5 42.9 1.0
CA E:GLY146 4.6 42.9 1.0
CB E:PRO107 4.7 42.1 1.0
CA F:PRO102 4.8 40.6 1.0
CG E:PRO107 4.8 42.1 1.0
C E:GLY146 4.8 42.9 1.0
C E:LEU145 4.9 42.6 1.0
O E:ALA147 4.9 44.8 1.0
CA E:ALA147 5.0 44.8 1.0
CA E:LEU145 5.0 42.6 1.0
CA F:GLY103 5.0 42.7 1.0
N E:CYS144 5.0 41.3 1.0

Iron binding site 7 out of 28 in 7qsl

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Iron binding site 7 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe502

b:32.8
occ:1.00
 FE1 F:SF4502 0.0 32.8 1.0
S3 F:SF4502 2.3 32.8 1.0
S4 F:SF4502 2.3 32.8 1.0
SG F:CYS362 2.3 29.4 1.0
S2 F:SF4502 2.3 32.8 1.0
FE2 F:SF4502 2.7 32.8 1.0
FE3 F:SF4502 2.7 32.8 1.0
FE4 F:SF4502 2.7 32.8 1.0
CB F:CYS362 3.4 29.4 1.0
N F:CYS362 3.7 29.4 1.0
S1 F:SF4502 3.9 32.8 1.0
CB F:CYS365 3.9 30.6 1.0
CA F:CYS362 4.0 29.4 1.0
N F:ILE404 4.2 30.6 1.0
O F:CYS362 4.2 29.4 1.0
CB F:ILE404 4.3 30.6 1.0
SG F:CYS365 4.5 30.6 1.0
C F:CYS362 4.5 29.4 1.0
CB F:THR403 4.6 31.2 1.0
N F:CYS405 4.6 32.7 1.0
SG F:CYS359 4.7 32.0 1.0
CG1 F:ILE404 4.7 30.6 1.0
CB F:GLN361 4.8 30.5 1.0
CA F:ILE404 4.8 30.6 1.0
CD1 F:ILE404 4.8 30.6 1.0
C F:GLN361 4.8 30.5 1.0
SG F:CYS405 4.8 32.7 1.0
CG2 F:THR403 4.9 31.2 1.0
N F:GLN361 4.9 30.5 1.0

Iron binding site 8 out of 28 in 7qsl

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Iron binding site 8 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe502

b:32.8
occ:1.00
 FE2 F:SF4502 0.0 32.8 1.0
SG F:CYS365 2.2 30.6 1.0
S4 F:SF4502 2.3 32.8 1.0
S1 F:SF4502 2.3 32.8 1.0
S3 F:SF4502 2.3 32.8 1.0
FE1 F:SF4502 2.7 32.8 1.0
FE3 F:SF4502 2.7 32.8 1.0
FE4 F:SF4502 2.7 32.8 1.0
CB F:CYS365 2.9 30.6 1.0
OG F:SER358 3.4 33.0 1.0
S2 F:SF4502 3.9 32.8 1.0
CD2 F:LEU407 4.0 34.9 1.0
CB F:SER358 4.3 33.0 1.0
CA F:CYS365 4.3 30.6 1.0
CB F:LEU407 4.4 34.9 1.0
N F:CYS359 4.4 32.0 1.0
N F:GLY408 4.5 34.5 1.0
CA F:SER358 4.5 33.0 1.0
SG F:CYS405 4.6 32.7 1.0
SG F:CYS362 4.6 29.4 1.0
CG F:LEU407 4.7 34.9 1.0
C F:CYS365 4.7 30.6 1.0
SG F:CYS359 4.8 32.0 1.0
CA F:GLY408 5.0 34.5 1.0
C F:SER358 5.0 33.0 1.0
N F:ARG366 5.0 30.6 1.0

Iron binding site 9 out of 28 in 7qsl

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Iron binding site 9 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe502

b:32.8
occ:1.00
 FE3 F:SF4502 0.0 32.8 1.0
SG F:CYS405 2.2 32.7 1.0
S4 F:SF4502 2.3 32.8 1.0
S2 F:SF4502 2.3 32.8 1.0
S1 F:SF4502 2.3 32.8 1.0
FE4 F:SF4502 2.7 32.8 1.0
FE2 F:SF4502 2.7 32.8 1.0
FE1 F:SF4502 2.7 32.8 1.0
CB F:CYS405 3.4 32.7 1.0
N F:CYS405 3.6 32.7 1.0
S3 F:SF4502 3.9 32.8 1.0
CA F:CYS405 4.0 32.7 1.0
CB F:LEU407 4.2 34.9 1.0
CG F:PRO203 4.2 33.3 1.0
C F:CYS405 4.3 32.7 1.0
CD1 F:ILE185 4.5 35.8 1.0
O F:CYS405 4.5 32.7 1.0
SG F:CYS359 4.6 32.0 1.0
N F:LEU407 4.6 34.9 1.0
CD F:PRO203 4.6 33.3 1.0
N F:GLY408 4.7 34.5 1.0
SG F:CYS365 4.8 30.6 1.0
C F:ILE404 4.8 30.6 1.0
SG F:CYS362 4.8 29.4 1.0
CB F:ILE404 4.9 30.6 1.0
CA F:LEU407 4.9 34.9 1.0
CB F:PRO203 5.0 33.3 1.0
N F:ILE404 5.0 30.6 1.0

Iron binding site 10 out of 28 in 7qsl

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Iron binding site 10 out of 28 in the Bovine Complex I in Lipid Nanodisc, Active-Apo


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Bovine Complex I in Lipid Nanodisc, Active-Apo within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe502

b:32.8
occ:1.00
 FE4 F:SF4502 0.0 32.8 1.0
SG F:CYS359 2.2 32.0 1.0
S3 F:SF4502 2.3 32.8 1.0
S1 F:SF4502 2.3 32.8 1.0
S2 F:SF4502 2.3 32.8 1.0
FE3 F:SF4502 2.7 32.8 1.0
FE2 F:SF4502 2.7 32.8 1.0
FE1 F:SF4502 2.7 32.8 1.0
CB F:CYS359 3.5 32.0 1.0
N F:CYS359 3.6 32.0 1.0
S4 F:SF4502 3.9 32.8 1.0
N F:GLN361 3.9 30.5 1.0
CA F:CYS359 4.0 32.0 1.0
N F:GLY360 4.0 31.1 1.0
CB F:GLN361 4.1 30.5 1.0
C F:CYS359 4.4 32.0 1.0
CD F:PRO203 4.4 33.3 1.0
OG F:SER358 4.5 33.0 1.0
CA F:GLN361 4.6 30.5 1.0
SG F:CYS405 4.6 32.7 1.0
N F:CYS362 4.6 29.4 1.0
NE2 F:GLN361 4.6 30.5 1.0
C F:SER358 4.7 33.0 1.0
SG F:CYS365 4.8 30.6 1.0
CG F:PRO203 4.8 33.3 1.0
C F:GLY360 4.8 31.1 1.0
SG F:CYS362 4.9 29.4 1.0
CA F:GLY360 4.9 31.1 1.0
CD1 F:ILE185 5.0 35.8 1.0

Reference:

I.Chung, J.J.Wright, H.R.Bridges, B.S.Ivanov, O.Biner, C.S.Pereira, G.M.Arantes, J.Hirst. Cryo-Em Structures Define Ubiquinone-10 Binding to Mitochondrial Complex I and Conformational Transitions Accompanying Q-Site Occupancy. Nat Commun V. 13 2758 2022.
ISSN: ESSN 2041-1723
PubMed: 35589726
DOI: 10.1038/S41467-022-30506-1
Page generated: Thu Aug 8 19:54:55 2024

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