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Iron in PDB 7zdp: Complex I From Ovis Aries at PH9, Open State

Enzymatic activity of Complex I From Ovis Aries at PH9, Open State

All present enzymatic activity of Complex I From Ovis Aries at PH9, Open State:
7.1.1.2;

Other elements in 7zdp:

The structure of Complex I From Ovis Aries at PH9, Open State also contains other interesting chemical elements:

Zinc (Zn) 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 Complex I From Ovis Aries at PH9, Open State (pdb code 7zdp). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Complex I From Ovis Aries at PH9, Open State, PDB code: 7zdp:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 7zdp

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Iron binding site 1 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:55.2
occ:1.00
 FE1 1:SF4501 0.0 55.2 1.0
S2 1:SF4501 2.3 84.1 1.0
S4 1:SF4501 2.3 89.0 1.0
S3 1:SF4501 2.3 55.2 1.0
SG 1:CYS365 2.3 30.5 1.0
FE3 1:SF4501 2.6 55.2 1.0
FE2 1:SF4501 2.7 55.2 1.0
FE4 1:SF4501 2.7 55.2 1.0
CB 1:CYS365 3.0 24.4 1.0
OG 1:SER358 3.3 44.5 1.0
S1 1:SF4501 3.9 55.2 1.0
CD2 1:LEU407 4.0 30.9 1.0
CA 1:CYS365 4.4 26.0 1.0
CB 1:SER358 4.5 36.7 1.0
N 1:CYS359 4.6 48.0 1.0
SG 1:CYS362 4.6 73.2 1.0
CB 1:LEU407 4.6 11.6 1.0
N 1:GLY360 4.7 30.2 1.0
C 1:CYS365 4.8 24.3 1.0
SG 1:CYS405 4.8 65.0 1.0
N 1:GLY408 4.9 45.2 1.0
SG 1:CYS359 4.9 28.8 1.0
N 1:ARG366 4.9 17.8 1.0
CA 1:SER358 4.9 34.0 1.0
CG 1:LEU407 4.9 18.9 1.0
O 1:CYS362 4.9 23.1 1.0

Iron binding site 2 out of 28 in 7zdp

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Iron binding site 2 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:55.2
occ:1.00
 FE2 1:SF4501 0.0 55.2 1.0
S4 1:SF4501 2.3 89.0 1.0
S1 1:SF4501 2.3 55.2 1.0
S3 1:SF4501 2.3 55.2 1.0
SG 1:CYS405 2.3 65.0 1.0
FE4 1:SF4501 2.6 55.2 1.0
FE1 1:SF4501 2.7 55.2 1.0
FE3 1:SF4501 2.8 55.2 1.0
CB 1:CYS405 3.4 43.9 1.0
S2 1:SF4501 3.9 84.1 1.0
N 1:CYS405 4.0 27.9 1.0
CB 1:LEU407 4.0 11.6 1.0
CA 1:CYS405 4.1 29.5 1.0
C 1:CYS405 4.3 28.1 1.0
O 1:CYS405 4.3 39.3 1.0
CD1 1:ILE185 4.4 37.6 1.0
N 1:LEU407 4.5 20.6 1.0
CG 1:PRO203 4.5 18.2 1.0
SG 1:CYS359 4.7 28.8 1.0
SG 1:CYS365 4.8 30.5 1.0
CA 1:LEU407 4.8 16.4 1.0
SG 1:CYS362 4.9 73.2 1.0
CD2 1:LEU407 4.9 30.9 1.0
CD 1:PRO203 4.9 21.8 1.0
N 1:GLY408 4.9 45.2 1.0
N 1:ALA406 5.0 26.6 1.0

Iron binding site 3 out of 28 in 7zdp

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Iron binding site 3 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:55.2
occ:1.00
 FE3 1:SF4501 0.0 55.2 1.0
S2 1:SF4501 2.3 84.1 1.0
S4 1:SF4501 2.3 89.0 1.0
S1 1:SF4501 2.3 55.2 1.0
SG 1:CYS362 2.3 73.2 1.0
FE1 1:SF4501 2.6 55.2 1.0
FE4 1:SF4501 2.7 55.2 1.0
FE2 1:SF4501 2.8 55.2 1.0
CB 1:CYS362 3.5 31.8 1.0
N 1:CYS362 3.8 26.9 1.0
S3 1:SF4501 3.9 55.2 1.0
O 1:CYS362 4.0 23.1 1.0
CB 1:CYS365 4.1 24.4 1.0
CA 1:CYS362 4.1 20.8 1.0
N 1:ILE404 4.3 35.4 1.0
CB 1:ILE404 4.4 38.5 1.0
C 1:CYS362 4.4 17.5 1.0
SG 1:CYS365 4.5 30.5 1.0
N 1:CYS405 4.6 27.9 1.0
CB 1:THR403 4.7 32.4 1.0
SG 1:CYS359 4.8 28.8 1.0
CG2 1:THR403 4.8 41.9 1.0
CA 1:ILE404 4.9 35.0 1.0
SG 1:CYS405 4.9 65.0 1.0
N 1:GLN361 4.9 21.5 1.0

Iron binding site 4 out of 28 in 7zdp

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Iron binding site 4 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe501

b:55.2
occ:1.00
 FE4 1:SF4501 0.0 55.2 1.0
S2 1:SF4501 2.3 84.1 1.0
S3 1:SF4501 2.3 55.2 1.0
S1 1:SF4501 2.3 55.2 1.0
SG 1:CYS359 2.3 28.8 1.0
FE2 1:SF4501 2.6 55.2 1.0
FE1 1:SF4501 2.7 55.2 1.0
FE3 1:SF4501 2.7 55.2 1.0
CB 1:CYS359 3.6 32.3 1.0
N 1:GLY360 3.7 30.2 1.0
N 1:CYS359 3.8 48.0 1.0
S4 1:SF4501 3.9 89.0 1.0
N 1:GLN361 3.9 21.5 1.0
CA 1:CYS359 4.0 41.6 1.0
C 1:CYS359 4.2 34.5 1.0
CD 1:PRO203 4.3 21.8 1.0
CB 1:GLN361 4.5 19.3 1.0
N 1:CYS362 4.6 26.9 1.0
CA 1:GLY360 4.6 27.2 1.0
OG 1:SER358 4.7 44.5 1.0
SG 1:CYS405 4.7 65.0 1.0
C 1:GLY360 4.7 16.0 1.0
CA 1:GLN361 4.7 29.1 1.0
CG 1:PRO203 4.8 18.2 1.0
CG1 1:ILE185 4.8 58.8 1.0
C 1:SER358 4.9 40.6 1.0
SG 1:CYS362 4.9 73.2 1.0
SG 1:CYS365 4.9 30.5 1.0

Iron binding site 5 out of 28 in 7zdp

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Iron binding site 5 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe300

b:113.4
occ:1.00
 FE1 2:FES300 0.0 113.4 1.0
S2 2:FES300 2.2 139.7 1.0
S1 2:FES300 2.2 114.0 1.0
SG 2:CYS108 2.3 101.4 1.0
SG 2:CYS103 2.3 75.5 1.0
FE2 2:FES300 2.7 73.1 1.0
CB 2:CYS103 3.5 46.0 1.0
CB 2:CYS108 3.5 75.1 1.0
CA 2:CYS144 3.9 43.5 1.0
CB 2:CYS144 4.2 48.6 1.0
N 2:LEU145 4.3 32.9 1.0
N 2:CYS108 4.4 47.5 1.0
SG 2:CYS144 4.5 95.3 1.0
CA 2:CYS108 4.5 42.8 1.0
CB 2:THR105 4.5 55.9 1.0
SG 2:CYS148 4.6 103.7 1.0
C 2:CYS144 4.7 39.5 1.0
CA 2:CYS103 4.8 45.2 1.0
N 2:CYS144 4.9 38.7 1.0
N 2:THR105 5.0 49.3 1.0

Iron binding site 6 out of 28 in 7zdp

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Iron binding site 6 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe300

b:73.1
occ:1.00
 FE2 2:FES300 0.0 73.1 1.0
S2 2:FES300 2.2 139.7 1.0
S1 2:FES300 2.2 114.0 1.0
SG 2:CYS148 2.3 103.7 1.0
SG 2:CYS144 2.3 95.3 1.0
FE1 2:FES300 2.7 113.4 1.0
CB 2:CYS144 3.0 48.6 1.0
CA 2:CYS144 3.6 43.5 1.0
CB 2:CYS148 3.7 87.3 1.0
N 2:GLY146 3.9 24.1 1.0
N 2:LEU145 3.9 32.9 1.0
N 2:CYS148 4.0 62.3 1.0
CA 2:CYS148 4.0 76.6 1.0
C 2:CYS144 4.1 39.5 1.0
N 2:ALA147 4.2 29.9 1.0
N 1:GLY103 4.3 40.4 1.0
CA 1:PRO102 4.5 44.6 1.0
CA 2:GLY146 4.5 31.7 1.0
SG 2:CYS103 4.5 75.5 1.0
C 2:ALA147 4.6 48.1 1.0
SG 2:CYS108 4.7 101.4 1.0
C 2:GLY146 4.8 33.2 1.0
C 2:LEU145 4.9 24.0 1.0
CB 1:PRO102 4.9 43.8 1.0
N 2:CYS144 4.9 38.7 1.0
CA 2:LEU145 5.0 21.6 1.0
C 1:PRO102 5.0 43.6 1.0

Iron binding site 7 out of 28 in 7zdp

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Iron binding site 7 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:63.6
occ:1.00
 FE1 3:SF4801 0.0 63.6 1.0
S2 3:SF4801 2.3 63.6 1.0
S4 3:SF4801 2.3 64.5 1.0
S3 3:SF4801 2.3 83.3 1.0
SG 3:CYS114 2.3 34.2 1.0
FE4 3:SF4801 2.7 63.6 1.0
FE2 3:SF4801 2.7 63.6 1.0
FE3 3:SF4801 2.7 63.6 1.0
CB 3:CYS114 3.4 44.5 1.0
S1 3:SF4801 3.9 81.2 1.0
NE2 3:GLN117 3.9 56.7 1.0
CG 3:GLN117 3.9 52.6 1.0
CD 3:GLN117 4.2 49.2 1.0
NE2 3:HIS101 4.2 53.8 1.0
CB 3:LEU116 4.5 40.5 1.0
CB 3:GLN110 4.6 20.5 1.0
CA 3:CYS114 4.7 40.1 1.0
N 3:GLN117 4.8 44.2 1.0
SG 3:CYS108 4.8 70.7 1.0
SG 3:CYS105 4.8 46.8 1.0
CD2 3:LEU116 4.8 19.1 1.0
N 3:GLY206 4.8 20.8 1.0
CA 3:VAL205 5.0 18.1 1.0
CB 3:GLN117 5.0 41.5 1.0

Iron binding site 8 out of 28 in 7zdp

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Iron binding site 8 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:63.6
occ:1.00
 FE2 3:SF4801 0.0 63.6 1.0
S1 3:SF4801 2.3 81.2 1.0
S4 3:SF4801 2.3 64.5 1.0
S3 3:SF4801 2.3 83.3 1.0
SG 3:CYS105 2.3 46.8 1.0
FE3 3:SF4801 2.7 63.6 1.0
FE4 3:SF4801 2.7 63.6 1.0
FE1 3:SF4801 2.7 63.6 1.0
NE2 3:GLN117 3.0 56.7 1.0
CB 3:CYS105 3.4 24.5 1.0
CA 3:CYS105 3.5 29.4 1.0
S2 3:SF4801 3.9 63.6 1.0
N 3:CYS105 4.0 29.9 1.0
CD 3:GLN117 4.0 49.2 1.0
CG 3:GLN117 4.2 52.6 1.0
NE2 3:HIS101 4.2 53.8 1.0
CD2 3:HIS101 4.6 57.4 1.0
C 3:ASP104 4.7 33.4 1.0
SG 3:CYS108 4.8 70.7 1.0
SG 3:CYS114 4.8 34.2 1.0
C 3:CYS105 4.9 32.1 1.0

Iron binding site 9 out of 28 in 7zdp

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Iron binding site 9 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:63.6
occ:1.00
 FE3 3:SF4801 0.0 63.6 1.0
NE2 3:HIS101 2.0 53.8 1.0
S2 3:SF4801 2.3 63.6 1.0
S1 3:SF4801 2.3 81.2 1.0
S4 3:SF4801 2.3 64.5 1.0
FE2 3:SF4801 2.7 63.6 1.0
FE1 3:SF4801 2.7 63.6 1.0
FE4 3:SF4801 2.7 63.6 1.0
CE1 3:HIS101 3.0 47.5 1.0
CD2 3:HIS101 3.0 57.4 1.0
S3 3:SF4801 3.9 83.3 1.0
ND1 3:HIS101 4.1 45.2 1.0
CG 3:HIS101 4.1 48.2 1.0
CD2 3:LEU116 4.5 19.1 1.0
CB 3:ARG152 4.7 42.4 1.0
SG 3:CYS105 4.8 46.8 1.0
SG 3:CYS108 4.8 70.7 1.0
O 3:PRO102 4.8 15.1 1.0
SG 3:CYS114 4.8 34.2 1.0
N 3:GLY206 4.8 20.8 1.0
CD 3:ARG152 4.9 49.6 1.0

Iron binding site 10 out of 28 in 7zdp

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Iron binding site 10 out of 28 in the Complex I From Ovis Aries at PH9, Open 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 Ovis Aries at PH9, Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
3:Fe801

b:63.6
occ:1.00
 FE4 3:SF4801 0.0 63.6 1.0
S2 3:SF4801 2.3 63.6 1.0
S1 3:SF4801 2.3 81.2 1.0
S3 3:SF4801 2.3 83.3 1.0
SG 3:CYS108 2.3 70.7 1.0
FE2 3:SF4801 2.7 63.6 1.0
FE1 3:SF4801 2.7 63.6 1.0
FE3 3:SF4801 2.7 63.6 1.0
CB 3:CYS108 3.2 40.0 1.0
S4 3:SF4801 3.9 64.5 1.0
CB 3:GLN110 4.2 20.5 1.0
N 3:GLY206 4.3 20.8 1.0
CA 3:GLY206 4.4 21.4 1.0
CA 3:CYS105 4.6 29.4 1.0
CA 3:CYS108 4.6 26.5 1.0
N 3:GLY111 4.7 18.1 1.0
NE2 3:HIS101 4.7 53.8 1.0
SG 3:CYS114 4.8 34.2 1.0
CD 3:ARG152 4.8 49.6 1.0
NE2 3:GLN117 4.8 56.7 1.0
SG 3:CYS105 4.8 46.8 1.0
O 3:ASP104 4.9 37.2 1.0
N 3:GLN110 4.9 20.4 1.0
CA 3:GLN110 4.9 18.1 1.0
C 3:GLN110 4.9 22.3 1.0
C 3:CYS108 5.0 27.4 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 14:13:19 2024

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