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Iron in PDB 7p7e: Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting State

Other elements in 7p7e:

The structure of Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting State also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Iron atom in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting State (pdb code 7p7e). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 32 binding sites of Iron where determined in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting State, PDB code: 7p7e:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 32 in 7p7e

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Iron binding site 1 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:41.6
occ:1.00
 FE1 F:SF4501 0.0 41.6 1.0
S3 F:SF4501 2.3 10.4 1.0
S4 F:SF4501 2.3 44.5 1.0
S2 F:SF4501 2.3 36.8 1.0
SG F:CYS354 2.3 9.2 1.0
FE2 F:SF4501 2.6 14.5 1.0
FE3 F:SF4501 2.8 23.5 1.0
FE4 F:SF4501 2.8 18.9 1.0
CB F:CYS354 3.4 20.7 1.0
N F:CYS354 3.8 6.2 1.0
S1 F:SF4501 3.9 2.6 1.0
CB F:CYS357 4.0 9.6 1.0
CA F:CYS354 4.1 10.9 1.0
CB F:PHE397 4.1 13.7 1.0
N F:PHE397 4.2 13.4 1.0
O F:CYS354 4.2 10.2 1.0
SG F:CYS357 4.4 12.1 1.0
N F:CYS398 4.5 13.0 1.0
C F:CYS354 4.5 10.6 1.0
CA F:PHE397 4.7 11.6 1.0
CB F:TRP353 4.7 9.2 1.0
CB F:THR396 4.7 17.5 1.0
C F:TRP353 4.8 13.2 1.0
SG F:CYS398 4.9 18.4 1.0
SG F:CYS351 4.9 9.7 1.0
N F:TRP353 4.9 13.1 1.0

Iron binding site 2 out of 32 in 7p7e

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Iron binding site 2 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:14.5
occ:1.00
 FE2 F:SF4501 0.0 14.5 1.0
S3 F:SF4501 2.3 10.4 1.0
S4 F:SF4501 2.3 44.5 1.0
S1 F:SF4501 2.3 2.6 1.0
SG F:CYS357 2.3 12.1 1.0
FE1 F:SF4501 2.6 41.6 1.0
FE4 F:SF4501 2.7 18.9 1.0
FE3 F:SF4501 2.7 23.5 1.0
CB F:CYS357 3.0 9.6 1.0
OG F:SER350 3.5 23.7 1.0
CD2 F:HIS400 3.8 16.5 1.0
S2 F:SF4501 3.9 36.8 1.0
CB F:SER350 4.3 17.2 1.0
N F:CYS351 4.4 11.2 1.0
CB F:HIS400 4.4 11.7 1.0
CG F:HIS400 4.4 23.4 1.0
CA F:CYS357 4.5 23.1 1.0
CA F:SER350 4.5 14.0 1.0
SG F:CYS354 4.5 9.2 1.0
SG F:CYS398 4.9 18.4 1.0
SG F:CYS351 4.9 9.7 1.0
NE2 F:HIS400 4.9 17.6 1.0
C F:SER350 5.0 20.4 1.0
C F:CYS357 5.0 15.0 1.0
N F:ARG358 5.0 11.2 1.0
N F:ALA401 5.0 25.6 1.0

Iron binding site 3 out of 32 in 7p7e

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Iron binding site 3 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:23.5
occ:1.00
 FE3 F:SF4501 0.0 23.5 1.0
S4 F:SF4501 2.3 44.5 1.0
S2 F:SF4501 2.3 36.8 1.0
S1 F:SF4501 2.3 2.6 1.0
SG F:CYS398 2.3 18.4 1.0
FE4 F:SF4501 2.6 18.9 1.0
FE2 F:SF4501 2.7 14.5 1.0
FE1 F:SF4501 2.8 41.6 1.0
CB F:CYS398 3.4 20.5 1.0
CB F:HIS400 3.9 11.7 1.0
S3 F:SF4501 3.9 10.4 1.0
N F:CYS398 3.9 13.0 1.0
CA F:CYS398 4.0 9.8 1.0
C F:CYS398 4.3 10.9 1.0
CG F:PRO197 4.3 13.8 1.0
O F:CYS398 4.4 12.4 1.0
N F:HIS400 4.5 19.7 1.0
CD1 F:ILE179 4.6 14.6 1.0
SG F:CYS351 4.7 9.7 1.0
CG F:HIS400 4.7 23.4 1.0
CA F:HIS400 4.8 18.0 1.0
CD F:PRO197 4.9 15.5 1.0
C F:PHE397 4.9 14.7 1.0
SG F:CYS354 4.9 9.2 1.0
SG F:CYS357 4.9 12.1 1.0
N F:ALA399 4.9 11.5 1.0
CD2 F:HIS400 5.0 16.5 1.0

Iron binding site 4 out of 32 in 7p7e

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Iron binding site 4 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:18.9
occ:1.00
 FE4 F:SF4501 0.0 18.9 1.0
S3 F:SF4501 2.3 10.4 1.0
S2 F:SF4501 2.3 36.8 1.0
S1 F:SF4501 2.3 2.6 1.0
SG F:CYS351 2.3 9.7 1.0
FE3 F:SF4501 2.6 23.5 1.0
FE2 F:SF4501 2.7 14.5 1.0
FE1 F:SF4501 2.8 41.6 1.0
CB F:CYS351 3.4 8.7 1.0
N F:CYS351 3.7 11.2 1.0
S4 F:SF4501 3.9 44.5 1.0
N F:TRP353 3.9 13.1 1.0
CA F:CYS351 4.0 11.6 1.0
N F:GLY352 4.0 10.8 1.0
CB F:TRP353 4.0 9.2 1.0
C F:CYS351 4.2 11.3 1.0
CD F:PRO197 4.4 15.5 1.0
CA F:TRP353 4.5 13.9 1.0
OG F:SER350 4.5 23.7 1.0
N F:CYS354 4.6 6.2 1.0
CG F:PRO197 4.6 13.8 1.0
SG F:CYS398 4.7 18.4 1.0
C F:SER350 4.9 20.4 1.0
C F:GLY352 4.9 11.4 1.0
SG F:CYS357 4.9 12.1 1.0
SG F:CYS354 5.0 9.2 1.0
CA F:GLY352 5.0 9.8 1.0

Iron binding site 5 out of 32 in 7p7e

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Iron binding site 5 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:32.5
occ:1.00
 FE1 E:FES201 0.0 32.5 1.0
S2 E:FES201 2.2 33.8 1.0
S1 E:FES201 2.2 23.1 1.0
SG E:CYS92 2.3 36.9 1.0
SG E:CYS97 2.3 33.3 1.0
FE2 E:FES201 2.7 27.6 1.0
CB E:CYS97 3.4 35.9 1.0
CB E:CYS92 3.5 33.1 1.0
O E:HOH319 3.8 49.8 1.0
N E:CYS97 4.0 29.0 1.0
ND2 E:ASN142 4.1 35.3 1.0
CA E:CYS133 4.2 25.3 1.0
CA E:CYS97 4.3 31.9 1.0
N E:LEU134 4.3 26.5 1.0
CB E:CYS133 4.4 29.4 1.0
SG E:CYS133 4.5 27.8 1.0
CB E:SER94 4.5 31.8 1.0
SG E:CYS137 4.7 38.9 1.0
CA E:CYS92 4.8 38.8 1.0
C E:CYS133 4.9 24.0 1.0
N E:SER94 4.9 32.5 1.0
CA E:CYS137 4.9 39.5 1.0
CB E:ASN142 4.9 32.0 1.0

Iron binding site 6 out of 32 in 7p7e

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Iron binding site 6 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:27.6
occ:1.00
 FE2 E:FES201 0.0 27.6 1.0
S2 E:FES201 2.2 33.8 1.0
S1 E:FES201 2.2 23.1 1.0
SG E:CYS137 2.3 38.9 1.0
SG E:CYS133 2.3 27.8 1.0
FE1 E:FES201 2.7 32.5 1.0
CB E:CYS133 3.2 29.4 1.0
CB E:CYS137 3.4 45.0 1.0
CA E:CYS133 3.8 25.3 1.0
CA E:CYS137 3.8 39.5 1.0
N E:LEU134 3.9 26.5 1.0
N E:CYS137 4.0 36.0 1.0
N E:GLY135 4.0 28.8 1.0
C E:CYS133 4.2 24.0 1.0
N E:ASN136 4.2 32.2 1.0
N F:GLY97 4.3 39.8 1.0
SG E:CYS92 4.4 36.9 1.0
C E:ASN136 4.6 34.2 1.0
CA E:GLY135 4.6 31.4 1.0
SG E:CYS97 4.7 33.3 1.0
O E:HOH319 4.7 49.8 1.0
CB E:VAL96 4.8 29.6 1.0
CG2 E:VAL96 4.8 34.6 1.0
CA F:PRO96 4.9 33.5 1.0
C E:LEU134 4.9 31.2 1.0
C E:GLY135 4.9 35.6 1.0
CA E:LEU134 4.9 29.4 1.0

Iron binding site 7 out of 32 in 7p7e

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Iron binding site 7 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:23.1
occ:1.00
 FE1 G:SF41001 0.0 23.1 1.0
S2 G:SF41001 2.3 18.3 1.0
S3 G:SF41001 2.3 42.5 1.0
S4 G:SF41001 2.3 80.2 1.0
SG G:CYS114 2.3 14.2 1.0
FE4 G:SF41001 2.7 44.4 1.0
FE3 G:SF41001 2.7 57.5 1.0
FE2 G:SF41001 2.7 28.5 1.0
CB G:CYS114 3.3 6.7 1.0
S1 G:SF41001 3.9 48.3 1.0
CG G:GLN117 3.9 5.5 1.0
NE2 G:HIS101 4.4 10.7 1.0
CD G:GLN117 4.4 8.8 1.0
N G:GLN117 4.5 11.3 1.0
CB G:LEU116 4.5 7.8 1.0
CB G:GLU110 4.6 21.2 1.0
CB G:GLN117 4.7 15.3 1.0
CD2 G:LEU116 4.7 8.9 1.0
CA G:CYS114 4.7 9.8 1.0
NE2 G:GLN117 4.7 8.2 1.0
SG G:CYS108 4.8 15.9 1.0
N G:GLY206 4.8 11.4 1.0
CA G:THR205 4.9 9.5 1.0
SG G:CYS105 4.9 13.8 1.0
CG G:LEU116 4.9 9.6 1.0
CG G:GLU110 4.9 28.1 1.0

Iron binding site 8 out of 32 in 7p7e

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Iron binding site 8 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:28.5
occ:1.00
 FE2 G:SF41001 0.0 28.5 1.0
S1 G:SF41001 2.3 48.3 1.0
S3 G:SF41001 2.3 42.5 1.0
S4 G:SF41001 2.3 80.2 1.0
SG G:CYS105 2.3 13.8 1.0
FE3 G:SF41001 2.7 57.5 1.0
FE4 G:SF41001 2.7 44.4 1.0
FE1 G:SF41001 2.7 23.1 1.0
CB G:CYS105 3.4 7.8 1.0
CA G:CYS105 3.6 8.5 1.0
NE2 G:GLN117 3.7 8.2 1.0
S2 G:SF41001 3.9 18.3 1.0
N G:CYS105 4.0 7.0 1.0
CG G:GLN117 4.0 5.5 1.0
NE2 G:HIS101 4.2 10.7 1.0
CD G:GLN117 4.2 8.8 1.0
CG1 C:ILE516 4.5 16.9 1.0
CD2 G:HIS101 4.7 8.6 1.0
C G:ASP104 4.8 10.8 1.0
SG G:CYS108 4.8 15.9 1.0
CD1 C:ILE512 4.8 28.2 1.0
CD1 C:ILE516 4.8 17.4 1.0
CB G:CYS108 4.9 10.6 1.0
SG G:CYS114 4.9 14.2 1.0
C G:CYS105 5.0 12.8 1.0

Iron binding site 9 out of 32 in 7p7e

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Iron binding site 9 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:57.5
occ:1.00
 FE3 G:SF41001 0.0 57.5 1.0
NE2 G:HIS101 1.9 10.7 1.0
S1 G:SF41001 2.3 48.3 1.0
S2 G:SF41001 2.3 18.3 1.0
S4 G:SF41001 2.3 80.2 1.0
FE1 G:SF41001 2.7 23.1 1.0
FE2 G:SF41001 2.7 28.5 1.0
FE4 G:SF41001 2.7 44.4 1.0
CE1 G:HIS101 2.8 8.1 1.0
CD2 G:HIS101 3.0 8.6 1.0
S3 G:SF41001 3.9 42.5 1.0
ND1 G:HIS101 3.9 6.7 1.0
CG G:HIS101 4.0 10.0 1.0
CD2 G:LEU116 4.2 8.9 1.0
CB G:ARG152 4.4 15.3 1.0
CG G:ARG152 4.4 8.3 1.0
SG G:CYS105 4.8 13.8 1.0
SG G:CYS114 4.8 14.2 1.0
CD G:ARG152 4.8 6.2 1.0
SG G:CYS108 4.9 15.9 1.0

Iron binding site 10 out of 32 in 7p7e

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Iron binding site 10 out of 32 in the Complex I From E. Coli, Ddm/Lmng-Purified, Apo, Resting 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 E. Coli, Ddm/Lmng-Purified, Apo, Resting State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:44.4
occ:1.00
 FE4 G:SF41001 0.0 44.4 1.0
S2 G:SF41001 2.3 18.3 1.0
S1 G:SF41001 2.3 48.3 1.0
S3 G:SF41001 2.3 42.5 1.0
SG G:CYS108 2.3 15.9 1.0
FE1 G:SF41001 2.7 23.1 1.0
FE2 G:SF41001 2.7 28.5 1.0
FE3 G:SF41001 2.7 57.5 1.0
CB G:CYS108 3.2 10.6 1.0
S4 G:SF41001 3.9 80.2 1.0
CD G:ARG152 4.2 6.2 1.0
CB G:GLU110 4.3 21.2 1.0
N G:GLY206 4.5 11.4 1.0
NE2 G:HIS101 4.5 10.7 1.0
NE G:ARG152 4.5 8.8 1.0
CA G:CYS105 4.6 8.5 1.0
CA G:CYS108 4.7 9.5 1.0
CA G:GLY206 4.7 6.6 1.0
CG G:ARG152 4.7 8.3 1.0
SG G:CYS114 4.7 14.2 1.0
SG G:CYS105 4.8 13.8 1.0
N G:GLY111 4.8 17.1 1.0
N G:CYS105 4.9 7.0 1.0
N G:GLU110 5.0 15.3 1.0
CA G:GLU110 5.0 19.0 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 8 15:08:50 2024

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