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Iron in PDB 7z7s: Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State

Enzymatic activity of Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State

All present enzymatic activity of Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State:
1.6.5.11; 1.6.5.3;

Other elements in 7z7s:

The structure of Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed 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, Lmng-Purified, Under Turnover at pH 6, Closed State (pdb code 7z7s). 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, Lmng-Purified, Under Turnover at pH 6, Closed State, PDB code: 7z7s:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 32 in 7z7s

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Iron binding site 1 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:17.5
occ:1.00
FE1 F:SF4501 0.0 17.5 1.0
S3 F:SF4501 2.3 14.9 1.0
S4 F:SF4501 2.3 14.8 1.0
S2 F:SF4501 2.3 12.3 1.0
SG F:CYS354 2.3 10.3 1.0
FE2 F:SF4501 2.6 22.4 1.0
FE3 F:SF4501 2.8 18.0 1.0
FE4 F:SF4501 2.8 18.6 1.0
CB F:CYS354 3.4 12.0 1.0
N F:CYS354 3.7 6.6 1.0
S1 F:SF4501 3.9 12.0 1.0
CB F:CYS357 4.0 9.5 1.0
CA F:CYS354 4.0 11.7 1.0
CB F:PHE397 4.1 13.7 1.0
N F:PHE397 4.2 11.1 1.0
O F:CYS354 4.2 15.7 1.0
SG F:CYS357 4.4 13.8 1.0
N F:CYS398 4.5 11.2 1.0
C F:CYS354 4.5 13.5 1.0
CB F:THR396 4.7 10.8 1.0
CB F:TRP353 4.7 13.1 1.0
CA F:PHE397 4.7 12.7 1.0
C F:TRP353 4.8 12.7 1.0
N F:TRP353 4.9 12.1 1.0
SG F:CYS398 4.9 20.4 1.0
SG F:CYS351 4.9 9.6 1.0

Iron binding site 2 out of 32 in 7z7s

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Iron binding site 2 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:22.4
occ:1.00
FE2 F:SF4501 0.0 22.4 1.0
S3 F:SF4501 2.3 14.9 1.0
S4 F:SF4501 2.3 14.8 1.0
S1 F:SF4501 2.3 12.0 1.0
SG F:CYS357 2.3 13.8 1.0
FE1 F:SF4501 2.6 17.5 1.0
FE4 F:SF4501 2.7 18.6 1.0
FE3 F:SF4501 2.7 18.0 1.0
CB F:CYS357 3.0 9.5 1.0
OG F:SER350 3.7 21.9 1.0
CD2 F:HIS400 3.7 24.9 1.0
S2 F:SF4501 3.8 12.3 1.0
N F:CYS351 4.3 10.8 1.0
CG F:HIS400 4.3 26.2 1.0
CB F:SER350 4.4 26.5 1.0
CB F:HIS400 4.4 15.6 1.0
CA F:SER350 4.4 15.5 1.0
CA F:CYS357 4.5 21.1 1.0
SG F:CYS354 4.5 10.3 1.0
NE2 F:HIS400 4.7 24.5 1.0
SG F:CYS398 4.8 20.4 1.0
SG F:CYS351 4.9 9.6 1.0
C F:SER350 4.9 14.4 1.0
N F:ARG358 4.9 20.3 1.0
C F:CYS357 4.9 17.4 1.0

Iron binding site 3 out of 32 in 7z7s

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Iron binding site 3 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:18.0
occ:1.00
FE3 F:SF4501 0.0 18.0 1.0
S4 F:SF4501 2.3 14.8 1.0
S1 F:SF4501 2.3 12.0 1.0
S2 F:SF4501 2.3 12.3 1.0
SG F:CYS398 2.3 20.4 1.0
FE4 F:SF4501 2.6 18.6 1.0
FE2 F:SF4501 2.7 22.4 1.0
FE1 F:SF4501 2.8 17.5 1.0
CB F:CYS398 3.4 20.1 1.0
N F:CYS398 3.8 11.2 1.0
S3 F:SF4501 3.9 14.9 1.0
CB F:HIS400 3.9 15.6 1.0
CA F:CYS398 4.0 8.6 1.0
CG F:PRO197 4.2 20.1 1.0
C F:CYS398 4.3 11.9 1.0
O F:CYS398 4.4 24.3 1.0
N F:HIS400 4.5 22.9 1.0
CD1 F:ILE179 4.6 28.7 1.0
SG F:CYS351 4.7 9.6 1.0
CG F:HIS400 4.7 26.2 1.0
CD F:PRO197 4.8 16.2 1.0
CA F:HIS400 4.8 20.6 1.0
SG F:CYS354 4.9 10.3 1.0
C F:PHE397 4.9 16.3 1.0
SG F:CYS357 4.9 13.8 1.0
CD2 F:HIS400 4.9 24.9 1.0
N F:ALA399 4.9 15.9 1.0

Iron binding site 4 out of 32 in 7z7s

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Iron binding site 4 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:18.6
occ:1.00
FE4 F:SF4501 0.0 18.6 1.0
S3 F:SF4501 2.3 14.9 1.0
S2 F:SF4501 2.3 12.3 1.0
S1 F:SF4501 2.3 12.0 1.0
SG F:CYS351 2.3 9.6 1.0
FE3 F:SF4501 2.6 18.0 1.0
FE2 F:SF4501 2.7 22.4 1.0
FE1 F:SF4501 2.8 17.5 1.0
CB F:CYS351 3.4 14.6 1.0
N F:CYS351 3.7 10.8 1.0
N F:TRP353 3.9 12.1 1.0
S4 F:SF4501 3.9 14.8 1.0
CB F:TRP353 3.9 13.1 1.0
CA F:CYS351 4.0 12.4 1.0
N F:GLY352 4.0 10.3 1.0
C F:CYS351 4.2 11.2 1.0
CD F:PRO197 4.4 16.2 1.0
CA F:TRP353 4.5 11.7 1.0
CG F:PRO197 4.5 20.1 1.0
N F:CYS354 4.6 6.6 1.0
OG F:SER350 4.7 21.9 1.0
SG F:CYS398 4.7 20.4 1.0
C F:SER350 4.9 14.4 1.0
C F:GLY352 4.9 13.2 1.0
SG F:CYS357 4.9 13.8 1.0
CG1 F:ILE179 4.9 25.1 1.0
SG F:CYS354 5.0 10.3 1.0
CA F:GLY352 5.0 9.3 1.0

Iron binding site 5 out of 32 in 7z7s

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Iron binding site 5 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:22.8
occ:1.00
FE1 E:FES201 0.0 22.8 1.0
S2 E:FES201 2.2 26.0 1.0
S1 E:FES201 2.2 17.4 1.0
SG E:CYS92 2.3 22.1 1.0
SG E:CYS97 2.3 21.8 1.0
FE2 E:FES201 2.7 25.0 1.0
CB E:CYS97 3.4 27.1 1.0
CB E:CYS92 3.4 20.6 1.0
N E:CYS97 4.0 24.2 1.0
ND2 E:ASN142 4.2 33.7 1.0
CA E:CYS133 4.2 21.3 1.0
O E:HOH314 4.2 43.6 1.0
CA E:CYS97 4.3 23.2 1.0
N E:LEU134 4.3 23.8 1.0
CB E:CYS133 4.4 25.3 1.0
SG E:CYS133 4.5 33.3 1.0
CB E:SER94 4.5 27.8 1.0
SG E:CYS137 4.7 34.4 1.0
CA E:CYS92 4.8 22.8 1.0
N E:SER94 4.8 20.8 1.0
C E:CYS133 4.8 26.0 1.0
CA E:CYS137 4.9 32.4 1.0
CB E:CYS137 5.0 33.9 1.0

Iron binding site 6 out of 32 in 7z7s

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Iron binding site 6 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe201

b:25.0
occ:1.00
FE2 E:FES201 0.0 25.0 1.0
S1 E:FES201 2.2 17.4 1.0
S2 E:FES201 2.2 26.0 1.0
SG E:CYS137 2.3 34.4 1.0
SG E:CYS133 2.3 33.3 1.0
FE1 E:FES201 2.7 22.8 1.0
CB E:CYS133 3.2 25.3 1.0
CB E:CYS137 3.4 33.9 1.0
CA E:CYS137 3.8 32.4 1.0
CA E:CYS133 3.8 21.3 1.0
N E:CYS137 3.9 34.5 1.0
N E:LEU134 4.0 23.8 1.0
N E:GLY135 4.0 21.5 1.0
N E:ASN136 4.2 34.5 1.0
C E:CYS133 4.2 26.0 1.0
N F:GLY97 4.2 20.1 1.0
SG E:CYS92 4.4 22.1 1.0
CA E:GLY135 4.5 27.8 1.0
C E:ASN136 4.6 35.2 1.0
SG E:CYS97 4.7 21.8 1.0
CA F:PRO96 4.8 25.1 1.0
C E:GLY135 4.8 25.3 1.0
CB E:VAL96 4.9 28.7 1.0
C E:LEU134 4.9 20.2 1.0
CG2 E:VAL96 4.9 31.5 1.0
CA E:LEU134 5.0 21.5 1.0

Iron binding site 7 out of 32 in 7z7s

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Iron binding site 7 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:91.4
occ:1.00
FE1 G:SF41001 0.0 91.4 1.0
S3 G:SF41001 2.3 38.0 1.0
S2 G:SF41001 2.3 23.7 1.0
S4 G:SF41001 2.3 55.6 1.0
SG G:CYS114 2.3 19.0 1.0
FE4 G:SF41001 2.7 98.1 1.0
FE3 G:SF41001 2.7 86.5 1.0
FE2 G:SF41001 2.8 90.4 1.0
CB G:CYS114 3.3 11.4 1.0
CG G:GLN117 3.8 4.2 1.0
S1 G:SF41001 3.9 31.8 1.0
NE2 G:HIS101 4.3 18.7 1.0
N G:GLN117 4.4 10.7 1.0
CB G:LEU116 4.5 13.8 1.0
CD G:GLN117 4.5 12.4 1.0
CB G:GLU110 4.6 26.4 1.0
CD2 G:LEU116 4.7 19.3 1.0
CB G:GLN117 4.7 17.1 1.0
SG G:CYS108 4.7 15.2 1.0
CA G:CYS114 4.7 12.4 1.0
NE2 G:GLN117 4.8 6.6 1.0
N G:GLY206 4.8 20.0 1.0
CA G:THR205 4.9 18.0 1.0
SG G:CYS105 4.9 26.3 1.0
CG G:LEU116 4.9 16.3 1.0
CG G:GLU110 4.9 39.2 1.0

Iron binding site 8 out of 32 in 7z7s

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Iron binding site 8 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:90.4
occ:1.00
FE2 G:SF41001 0.0 90.4 1.0
S1 G:SF41001 2.3 31.8 1.0
S3 G:SF41001 2.3 38.0 1.0
S4 G:SF41001 2.3 55.6 1.0
SG G:CYS105 2.3 26.3 1.0
FE3 G:SF41001 2.7 86.5 1.0
FE4 G:SF41001 2.7 98.1 1.0
FE1 G:SF41001 2.8 91.4 1.0
CB G:CYS105 3.4 6.3 1.0
CA G:CYS105 3.6 6.0 1.0
NE2 G:GLN117 3.7 6.6 1.0
N G:CYS105 3.9 6.0 1.0
S2 G:SF41001 3.9 23.7 1.0
CG G:GLN117 4.0 4.2 1.0
CD G:GLN117 4.2 12.4 1.0
NE2 G:HIS101 4.2 18.7 1.0
CG1 C:ILE516 4.5 12.5 1.0
CD2 G:HIS101 4.7 10.5 1.0
CD1 C:ILE512 4.7 23.2 1.0
C G:ASP104 4.7 7.4 1.0
SG G:CYS108 4.8 15.2 1.0
CB G:CYS108 4.8 9.4 1.0
SG G:CYS114 4.9 19.0 1.0
CD1 C:ILE516 4.9 9.4 1.0
C G:CYS105 5.0 16.0 1.0

Iron binding site 9 out of 32 in 7z7s

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Iron binding site 9 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:86.5
occ:1.00
FE3 G:SF41001 0.0 86.5 1.0
NE2 G:HIS101 1.9 18.7 1.0
S1 G:SF41001 2.3 31.8 1.0
S2 G:SF41001 2.3 23.7 1.0
S4 G:SF41001 2.3 55.6 1.0
FE2 G:SF41001 2.7 90.4 1.0
FE1 G:SF41001 2.7 91.4 1.0
FE4 G:SF41001 2.7 98.1 1.0
CE1 G:HIS101 2.8 11.6 1.0
CD2 G:HIS101 3.0 10.5 1.0
S3 G:SF41001 3.9 38.0 1.0
ND1 G:HIS101 4.0 5.9 1.0
CG G:HIS101 4.1 10.9 1.0
CD2 G:LEU116 4.2 19.3 1.0
CG G:ARG152 4.3 12.6 1.0
CB G:ARG152 4.5 23.1 1.0
SG G:CYS105 4.7 26.3 1.0
CD G:ARG152 4.8 13.4 1.0
SG G:CYS114 4.8 19.0 1.0
SG G:CYS108 4.9 15.2 1.0
O G:PRO102 4.9 19.0 1.0

Iron binding site 10 out of 32 in 7z7s

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Iron binding site 10 out of 32 in the Complex I From E. Coli, Lmng-Purified, Under Turnover at pH 6, 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 E. Coli, Lmng-Purified, Under Turnover at pH 6, Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe1001

b:98.1
occ:1.00
FE4 G:SF41001 0.0 98.1 1.0
S2 G:SF41001 2.3 23.7 1.0
S3 G:SF41001 2.3 38.0 1.0
S1 G:SF41001 2.3 31.8 1.0
SG G:CYS108 2.3 15.2 1.0
FE1 G:SF41001 2.7 91.4 1.0
FE2 G:SF41001 2.7 90.4 1.0
FE3 G:SF41001 2.7 86.5 1.0
CB G:CYS108 3.2 9.4 1.0
S4 G:SF41001 3.9 55.6 1.0
CD G:ARG152 4.1 13.4 1.0
CB G:GLU110 4.3 26.4 1.0
N G:GLY206 4.4 20.0 1.0
NE G:ARG152 4.5 15.6 1.0
NE2 G:HIS101 4.5 18.7 1.0
CG G:ARG152 4.6 12.6 1.0
CA G:CYS105 4.6 6.0 1.0
CA G:CYS108 4.6 11.8 1.0
CA G:GLY206 4.6 12.1 1.0
SG G:CYS114 4.7 19.0 1.0
N G:GLY111 4.8 16.6 1.0
SG G:CYS105 4.8 26.3 1.0
N G:CYS105 4.9 6.0 1.0
N G:GLU110 4.9 15.1 1.0
CA G:GLU110 5.0 19.2 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: Fri Aug 9 13:03:46 2024

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