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Iron in PDB 6ziy: Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State

Iron Binding Sites:

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>>> 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 Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State (pdb code 6ziy). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 32 binding sites of Iron where determined in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State, PDB code: 6ziy:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 32 in 6ziy

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Iron binding site 1 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:50.0
occ:1.00
 FE1 1:SF4501 0.0 50.0 1.0
S2 1:SF4501 2.2 50.0 1.0
SG 1:CYS356 2.3 50.0 1.0
S4 1:SF4501 2.3 50.0 1.0
S3 1:SF4501 2.3 50.0 1.0
FE4 1:SF4501 2.4 50.0 1.0
FE2 1:SF4501 2.5 50.0 1.0
FE3 1:SF4501 2.6 50.0 1.0
CB 1:CYS356 3.2 50.0 1.0
SG 1:CYS400 3.8 50.0 1.0
S1 1:SF4501 3.8 50.0 1.0
N 1:CYS356 3.8 50.0 1.0
SG 1:CYS359 4.1 50.0 1.0
CA 1:CYS356 4.2 50.0 1.0
SG 1:CYS353 4.2 50.0 1.0
OG 1:SER398 4.4 50.0 1.0
CB 1:CYS400 4.5 50.0 1.0
CB 1:CYS359 4.5 50.0 1.0
N 1:CYS400 4.8 50.0 1.0
N 1:LYS355 4.8 50.0 1.0
C 1:LYS355 4.9 50.0 1.0
CB 1:LYS355 4.9 50.0 1.0

Iron binding site 2 out of 32 in 6ziy

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Iron binding site 2 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:50.0
occ:1.00
 FE2 1:SF4501 0.0 50.0 1.0
S1 1:SF4501 2.2 50.0 1.0
SG 1:CYS359 2.3 50.0 1.0
S4 1:SF4501 2.3 50.0 1.0
S3 1:SF4501 2.3 50.0 1.0
FE3 1:SF4501 2.4 50.0 1.0
FE4 1:SF4501 2.4 50.0 1.0
FE1 1:SF4501 2.5 50.0 1.0
CB 1:CYS359 3.6 50.0 1.0
S2 1:SF4501 3.6 50.0 1.0
N 1:CYS353 3.9 50.0 1.0
CD2 1:LEU402 4.1 50.0 1.0
CA 1:SER352 4.1 50.0 1.0
CB 1:SER352 4.4 50.0 1.0
SG 1:CYS356 4.5 50.0 1.0
OG 1:SER352 4.5 50.0 1.0
CB 1:LEU402 4.5 50.0 1.0
C 1:SER352 4.5 50.0 1.0
SG 1:CYS353 4.5 50.0 1.0
SG 1:CYS400 4.6 50.0 1.0
CB 1:CYS353 4.7 50.0 1.0
CG 1:LEU402 4.7 50.0 1.0
CB 1:CYS356 4.8 50.0 1.0
CA 1:CYS353 4.9 50.0 1.0
N 1:GLY354 4.9 50.0 1.0
CA 1:CYS359 4.9 50.0 1.0
CD1 1:LEU402 5.0 50.0 1.0

Iron binding site 3 out of 32 in 6ziy

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Iron binding site 3 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:50.0
occ:1.00
 FE3 1:SF4501 0.0 50.0 1.0
S4 1:SF4501 2.3 50.0 1.0
SG 1:CYS400 2.3 50.0 1.0
S1 1:SF4501 2.3 50.0 1.0
S2 1:SF4501 2.3 50.0 1.0
FE2 1:SF4501 2.4 50.0 1.0
FE1 1:SF4501 2.6 50.0 1.0
FE4 1:SF4501 2.6 50.0 1.0
CB 1:LEU402 3.4 50.0 1.0
CB 1:CYS400 3.9 50.0 1.0
S3 1:SF4501 3.9 50.0 1.0
CD1 1:ILE181 4.0 50.0 1.0
CG 1:LEU402 4.3 50.0 1.0
CD1 1:LEU402 4.3 50.0 1.0
CD2 1:LEU402 4.4 50.0 1.0
SG 1:CYS359 4.6 50.0 1.0
CA 1:LEU402 4.6 50.0 1.0
N 1:LEU402 4.6 50.0 1.0
SG 1:CYS353 4.6 50.0 1.0
SG 1:CYS356 4.6 50.0 1.0
O 1:CYS400 4.8 50.0 1.0
CG1 1:ILE181 4.8 50.0 1.0
CA 1:CYS400 4.8 50.0 1.0
C 1:CYS400 4.9 50.0 1.0
CB 1:CYS353 4.9 50.0 1.0

Iron binding site 4 out of 32 in 6ziy

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Iron binding site 4 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:50.0
occ:1.00
 FE4 1:SF4501 0.0 50.0 1.0
S2 1:SF4501 2.2 50.0 1.0
SG 1:CYS353 2.2 50.0 1.0
S3 1:SF4501 2.2 50.0 1.0
S1 1:SF4501 2.4 50.0 1.0
FE2 1:SF4501 2.4 50.0 1.0
FE1 1:SF4501 2.4 50.0 1.0
FE3 1:SF4501 2.6 50.0 1.0
CB 1:CYS353 2.8 50.0 1.0
N 1:CYS353 3.3 50.0 1.0
CA 1:CYS353 3.5 50.0 1.0
S4 1:SF4501 3.8 50.0 1.0
N 1:GLY354 3.9 50.0 1.0
C 1:CYS353 4.1 50.0 1.0
N 1:LYS355 4.2 50.0 1.0
C 1:SER352 4.4 50.0 1.0
SG 1:CYS359 4.4 50.0 1.0
SG 1:CYS400 4.5 50.0 1.0
SG 1:CYS356 4.5 50.0 1.0
CB 1:LYS355 4.8 50.0 1.0
CA 1:SER352 4.8 50.0 1.0
N 1:CYS356 4.8 50.0 1.0
CD1 1:ILE181 5.0 50.0 1.0

Iron binding site 5 out of 32 in 6ziy

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Iron binding site 5 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe201

b:50.0
occ:1.00
 FE1 2:FES201 0.0 50.0 1.0
S1 2:FES201 2.2 50.0 1.0
S2 2:FES201 2.2 50.0 1.0
SG 2:CYS88 2.3 50.0 1.0
SG 2:CYS83 2.3 50.0 1.0
FE2 2:FES201 2.5 50.0 1.0
CB 2:CYS88 3.2 50.0 1.0
CB 2:CYS83 3.5 50.0 1.0
N 2:CYS88 3.8 50.0 1.0
SG 2:CYS124 4.0 50.0 1.0
CA 2:CYS88 4.1 50.0 1.0
O 2:THR85 4.2 50.0 1.0
SG 2:CYS128 4.3 50.0 1.0
N 2:LEU125 4.5 50.0 1.0
CA 2:CYS124 4.5 50.0 1.0
CG1 2:VAL133 4.5 50.0 1.0
CB 2:SER87 4.5 50.0 1.0
CB 2:CYS124 4.7 50.0 1.0
N 2:THR85 4.8 50.0 1.0
C 2:SER87 4.8 50.0 1.0
CA 2:CYS83 4.8 50.0 1.0
C 2:THR85 4.9 50.0 1.0
CA 2:CYS128 4.9 50.0 1.0
CB 2:THR85 4.9 50.0 1.0

Iron binding site 6 out of 32 in 6ziy

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Iron binding site 6 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe201

b:50.0
occ:1.00
 FE2 2:FES201 0.0 50.0 1.0
S1 2:FES201 2.2 50.0 1.0
S2 2:FES201 2.2 50.0 1.0
SG 2:CYS124 2.3 50.0 1.0
SG 2:CYS128 2.3 50.0 1.0
FE1 2:FES201 2.5 50.0 1.0
CB 2:CYS124 3.8 50.0 1.0
CB 2:CYS128 3.8 50.0 1.0
N 2:GLY126 3.9 50.0 1.0
OG 2:SER87 4.0 50.0 1.0
CA 2:CYS128 4.0 50.0 1.0
N 2:CYS128 4.1 50.0 1.0
CB 2:SER87 4.2 50.0 1.0
N 2:LEU125 4.2 50.0 1.0
SG 2:CYS83 4.2 50.0 1.0
CA 2:GLY126 4.3 50.0 1.0
N 2:SER127 4.3 50.0 1.0
CA 2:CYS124 4.3 50.0 1.0
N 1:GLY99 4.5 50.0 1.0
SG 2:CYS88 4.5 50.0 1.0
C 2:CYS124 4.7 50.0 1.0
C 2:SER127 4.8 50.0 1.0
C 2:GLY126 4.8 50.0 1.0
C 2:LEU125 4.9 50.0 1.0

Iron binding site 7 out of 32 in 6ziy

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Iron binding site 7 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:50.0
occ:1.00
 FE1 3:SF4801 0.0 50.0 1.0
S2 3:SF4801 2.2 50.0 1.0
S4 3:SF4801 2.3 50.0 1.0
SG 3:CYS128 2.3 50.0 1.0
S3 3:SF4801 2.3 50.0 1.0
FE2 3:SF4801 2.5 50.0 1.0
FE4 3:SF4801 2.5 50.0 1.0
FE3 3:SF4801 2.7 50.0 1.0
CB 3:CYS128 3.3 50.0 1.0
S1 3:SF4801 3.9 50.0 1.0
NE2 3:HIS115 4.1 50.0 1.0
SG 3:CYS119 4.2 50.0 1.0
SG 3:CYS122 4.3 50.0 1.0
CE1 3:HIS115 4.7 50.0 1.0
CB 3:LYS124 4.7 50.0 1.0
CA 3:CYS128 4.7 50.0 1.0
N 3:GLY233 4.8 50.0 1.0
NE2 3:GLN131 4.8 50.0 1.0
CB 3:VAL232 5.0 50.0 1.0

Iron binding site 8 out of 32 in 6ziy

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Iron binding site 8 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:50.0
occ:1.00
 FE2 3:SF4801 0.0 50.0 1.0
S1 3:SF4801 2.2 50.0 1.0
SG 3:CYS119 2.3 50.0 1.0
S4 3:SF4801 2.3 50.0 1.0
S3 3:SF4801 2.3 50.0 1.0
FE4 3:SF4801 2.4 50.0 1.0
FE3 3:SF4801 2.4 50.0 1.0
FE1 3:SF4801 2.5 50.0 1.0
S2 3:SF4801 3.6 50.0 1.0
CB 3:CYS119 3.7 50.0 1.0
CA 3:CYS119 3.7 50.0 1.0
N 3:CYS119 3.8 50.0 1.0
NE2 3:HIS115 4.1 50.0 1.0
CB 3:CYS122 4.2 50.0 1.0
SG 3:CYS122 4.4 50.0 1.0
SG 3:CYS128 4.5 50.0 1.0
NE2 3:GLN131 4.5 50.0 1.0
CD2 3:HIS115 4.6 50.0 1.0
C 3:ASP118 4.7 50.0 1.0
CD1 4:ILE325 4.8 50.0 1.0
CE 4:MET321 4.8 50.0 1.0
C 3:CYS119 4.9 50.0 1.0

Iron binding site 9 out of 32 in 6ziy

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Iron binding site 9 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:50.0
occ:1.00
 FE3 3:SF4801 0.0 50.0 1.0
NE2 3:HIS115 2.1 50.0 1.0
S1 3:SF4801 2.3 50.0 1.0
S4 3:SF4801 2.3 50.0 1.0
S2 3:SF4801 2.3 50.0 1.0
FE2 3:SF4801 2.4 50.0 1.0
FE4 3:SF4801 2.6 50.0 1.0
FE1 3:SF4801 2.7 50.0 1.0
CD2 3:HIS115 2.9 50.0 1.0
CE1 3:HIS115 3.3 50.0 1.0
S3 3:SF4801 4.0 50.0 1.0
CG 3:HIS115 4.1 50.0 1.0
CG 3:ARG180 4.2 50.0 1.0
ND1 3:HIS115 4.3 50.0 1.0
CD 3:ARG180 4.4 50.0 1.0
CB 3:ARG180 4.4 50.0 1.0
SG 3:CYS119 4.5 50.0 1.0
O 3:PRO116 4.6 50.0 1.0
SG 3:CYS122 4.6 50.0 1.0
O 3:ARG180 4.8 50.0 1.0
SG 3:CYS128 4.8 50.0 1.0
CE 4:MET321 4.9 50.0 1.0
NE 3:ARG180 5.0 50.0 1.0
CA 3:ARG180 5.0 50.0 1.0

Iron binding site 10 out of 32 in 6ziy

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Iron binding site 10 out of 32 in the Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Respiratory Complex I From Thermus Thermophilus, Nadh Dataset, Major State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:50.0
occ:1.00
 FE4 3:SF4801 0.0 50.0 1.0
SG 3:CYS122 2.2 50.0 1.0
S2 3:SF4801 2.2 50.0 1.0
S3 3:SF4801 2.2 50.0 1.0
S1 3:SF4801 2.4 50.0 1.0
FE2 3:SF4801 2.4 50.0 1.0
FE1 3:SF4801 2.5 50.0 1.0
FE3 3:SF4801 2.6 50.0 1.0
CB 3:CYS122 2.8 50.0 1.0
S4 3:SF4801 3.8 50.0 1.0
CD 3:ARG180 4.2 50.0 1.0
CA 3:CYS122 4.3 50.0 1.0
SG 3:CYS119 4.3 50.0 1.0
CB 3:LYS124 4.4 50.0 1.0
NE 3:ARG180 4.5 50.0 1.0
SG 3:CYS128 4.7 50.0 1.0
NE2 3:HIS115 4.7 50.0 1.0
CA 3:CYS119 4.7 50.0 1.0
CG 3:ARG180 4.9 50.0 1.0
N 3:CYS119 4.9 50.0 1.0
CZ 3:ARG180 5.0 50.0 1.0

Reference:

J.Gutierrez-Fernandez, K.Kaszuba, G.S.Minhas, R.Baradaran, M.Tambalo, D.T.Gallagher, L.A.Sazanov. Key Role of Quinone in the Mechanism of Respiratory Complex I. Nat Commun V. 11 4135 2020.
ISSN: ESSN 2041-1723
PubMed: 32811817
DOI: 10.1038/S41467-020-17957-0
Page generated: Wed Aug 7 18:38:20 2024

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