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Iron in PDB 8ca4: Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).

Enzymatic activity of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).

All present enzymatic activity of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).:
7.1.1.2;

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). (pdb code 8ca4). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 16 binding sites of Iron where determined in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain)., PDB code: 8ca4:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 16 in 8ca4

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Iron binding site 1 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe301

b:70.3
occ:1.00
 FE1 E:FES301 0.0 70.3 1.0
S1 E:FES301 2.2 60.7 1.0
S2 E:FES301 2.2 70.4 1.0
SG E:CYS103 2.3 63.5 1.0
SG E:CYS108 2.3 50.3 1.0
FE2 E:FES301 2.7 60.3 1.0
CB E:CYS108 3.3 45.5 1.0
CB E:CYS103 3.3 44.6 1.0
N E:CYS108 4.2 53.0 1.0
CA E:CYS108 4.3 48.1 1.0
CA E:CYS144 4.5 40.6 1.0
CA E:CYS103 4.6 35.5 1.0
SG E:CYS144 4.6 59.3 1.0
N E:LEU145 4.7 35.0 1.0
C E:CYS103 4.7 41.3 1.0
SG E:CYS148 4.7 59.0 1.0
CA E:CYS148 4.9 45.2 1.0
N E:THR105 4.9 46.0 1.0
CB E:THR105 4.9 41.5 1.0
O E:THR105 4.9 49.4 1.0
CB E:CYS144 5.0 43.5 1.0
N E:THR104 5.0 39.9 1.0

Iron binding site 2 out of 16 in 8ca4

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Iron binding site 2 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe301

b:60.3
occ:1.00
 FE2 E:FES301 0.0 60.3 1.0
S1 E:FES301 2.2 60.7 1.0
S2 E:FES301 2.2 70.4 1.0
SG E:CYS148 2.3 59.0 1.0
SG E:CYS144 2.3 59.3 1.0
FE1 E:FES301 2.7 70.3 1.0
CB E:CYS148 3.3 49.4 1.0
CB E:CYS144 3.4 43.5 1.0
CA E:CYS144 3.7 40.6 1.0
CA E:CYS148 3.7 45.2 1.0
N E:LEU145 4.0 35.0 1.0
SG E:CYS103 4.1 63.5 1.0
N E:CYS148 4.1 53.9 1.0
O E:GLY146 4.2 50.5 1.0
C E:CYS144 4.3 46.4 1.0
N F:GLY103 4.4 49.5 1.0
N E:GLY146 4.4 44.1 1.0
C E:GLY146 4.5 41.4 1.0
SG E:CYS108 4.6 50.3 1.0
C E:ALA147 4.7 51.5 1.0
CB E:PRO107 4.7 31.8 1.0
CA E:GLY146 4.8 41.8 1.0
CG E:PRO107 4.8 42.8 1.0
O E:ALA147 4.9 53.8 1.0
N E:CYS144 4.9 43.7 1.0

Iron binding site 3 out of 16 in 8ca4

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Iron binding site 3 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:68.2
occ:1.00
 FE1 F:SF4501 0.0 68.2 1.0
S3 F:SF4501 2.3 74.9 1.0
S4 F:SF4501 2.3 59.4 1.0
S2 F:SF4501 2.3 53.7 1.0
SG F:CYS362 2.3 40.7 1.0
FE2 F:SF4501 2.7 60.8 1.0
FE4 F:SF4501 2.7 60.8 1.0
FE3 F:SF4501 2.7 60.0 1.0
CB F:CYS362 3.4 37.5 1.0
N F:CYS362 3.7 36.2 1.0
S1 F:SF4501 3.9 68.4 1.0
CA F:CYS362 4.0 32.1 1.0
O F:CYS362 4.0 43.9 1.0
CB F:CYS365 4.1 43.6 1.0
N F:ILE404 4.2 35.0 1.0
CB F:ILE404 4.4 26.9 1.0
C F:CYS362 4.4 35.8 1.0
SG F:CYS365 4.5 57.2 1.0
CB F:THR403 4.5 41.0 1.0
CG2 F:THR403 4.5 44.1 1.0
N F:CYS405 4.6 40.1 1.0
SG F:CYS359 4.8 55.6 1.0
SG F:CYS405 4.8 49.5 1.0
N F:GLN361 4.8 39.3 1.0
C F:GLN361 4.8 37.7 1.0
CA F:ILE404 4.8 28.6 1.0
CB F:GLN361 4.9 33.5 1.0
CG1 F:ILE404 4.9 35.3 1.0

Iron binding site 4 out of 16 in 8ca4

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Iron binding site 4 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:60.8
occ:1.00
 FE2 F:SF4501 0.0 60.8 1.0
SG F:CYS365 2.2 57.2 1.0
S4 F:SF4501 2.3 59.4 1.0
S3 F:SF4501 2.3 74.9 1.0
S1 F:SF4501 2.3 68.4 1.0
FE1 F:SF4501 2.7 68.2 1.0
FE3 F:SF4501 2.7 60.0 1.0
FE4 F:SF4501 2.7 60.8 1.0
CB F:CYS365 2.9 43.6 1.0
S2 F:SF4501 3.9 53.7 1.0
CB F:SER358 4.2 42.1 1.0
CD2 F:LEU407 4.3 45.4 1.0
CA F:CYS365 4.3 40.6 1.0
N F:CYS359 4.4 44.2 1.0
N F:ARG366 4.6 35.3 1.0
C F:CYS365 4.6 40.6 1.0
N F:GLY360 4.6 43.1 1.0
SG F:CYS362 4.6 40.7 1.0
CA F:SER358 4.6 33.3 1.0
CB F:LEU407 4.7 43.9 1.0
SG F:CYS405 4.7 49.5 1.0
SG F:CYS359 4.8 55.6 1.0
CG F:LEU407 4.9 45.7 1.0
C F:SER358 4.9 40.1 1.0
OG F:SER358 5.0 47.2 1.0
O F:CYS362 5.0 43.9 1.0

Iron binding site 5 out of 16 in 8ca4

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Iron binding site 5 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:60.0
occ:1.00
 FE3 F:SF4501 0.0 60.0 1.0
S4 F:SF4501 2.3 59.4 1.0
S1 F:SF4501 2.3 68.4 1.0
S2 F:SF4501 2.3 53.7 1.0
SG F:CYS405 2.3 49.5 1.0
FE4 F:SF4501 2.7 60.8 1.0
FE2 F:SF4501 2.7 60.8 1.0
FE1 F:SF4501 2.7 68.2 1.0
CB F:CYS405 3.3 39.2 1.0
S3 F:SF4501 3.9 74.9 1.0
N F:CYS405 4.0 40.1 1.0
CB F:LEU407 4.0 43.9 1.0
CA F:CYS405 4.1 35.7 1.0
CG F:PRO203 4.4 36.2 1.0
C F:CYS405 4.5 41.2 1.0
O F:CYS405 4.5 53.3 1.0
CD1 F:ILE185 4.6 51.0 1.0
N F:LEU407 4.7 42.0 1.0
SG F:CYS365 4.8 57.2 1.0
SG F:CYS359 4.8 55.6 1.0
CD F:PRO203 4.8 37.2 1.0
SG F:CYS362 4.8 40.7 1.0
CA F:LEU407 4.9 36.2 1.0
N F:GLY408 4.9 49.2 1.0
CG F:LEU407 5.0 45.7 1.0

Iron binding site 6 out of 16 in 8ca4

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Iron binding site 6 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:60.8
occ:1.00
 FE4 F:SF4501 0.0 60.8 1.0
SG F:CYS359 2.3 55.6 1.0
S3 F:SF4501 2.3 74.9 1.0
S2 F:SF4501 2.3 53.7 1.0
S1 F:SF4501 2.3 68.4 1.0
FE3 F:SF4501 2.7 60.0 1.0
FE2 F:SF4501 2.7 60.8 1.0
FE1 F:SF4501 2.7 68.2 1.0
CB F:CYS359 3.3 35.6 1.0
N F:GLN361 3.6 39.3 1.0
N F:GLY360 3.7 43.1 1.0
N F:CYS359 3.8 44.2 1.0
S4 F:SF4501 3.9 59.4 1.0
CA F:CYS359 3.9 39.6 1.0
CB F:GLN361 4.0 33.5 1.0
C F:CYS359 4.1 40.5 1.0
CA F:GLN361 4.4 37.2 1.0
N F:CYS362 4.4 36.2 1.0
CD F:PRO203 4.4 37.2 1.0
C F:GLY360 4.5 32.7 1.0
CA F:GLY360 4.6 37.4 1.0
OE1 F:GLN361 4.7 42.1 1.0
SG F:CYS365 4.8 57.2 1.0
SG F:CYS405 4.8 49.5 1.0
SG F:CYS362 4.9 40.7 1.0
CG F:PRO203 4.9 36.2 1.0
C F:SER358 4.9 40.1 1.0
C F:GLN361 4.9 37.7 1.0

Iron binding site 7 out of 16 in 8ca4

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Iron binding site 7 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe801

b:45.4
occ:1.00
 FE1 G:SF4801 0.0 45.4 1.0
SG G:CYS114 2.2 42.7 1.0
S2 G:SF4801 2.3 47.0 1.0
S4 G:SF4801 2.3 42.9 1.0
S3 G:SF4801 2.3 56.2 1.0
FE3 G:SF4801 2.7 56.0 1.0
FE4 G:SF4801 2.7 47.9 1.0
FE2 G:SF4801 2.7 56.1 1.0
CB G:CYS114 3.2 44.9 1.0
S1 G:SF4801 3.9 54.5 1.0
CG G:GLN117 3.9 37.1 1.0
O G:GLN110 4.3 44.3 1.0
CB G:LEU116 4.3 33.2 1.0
NE2 G:HIS101 4.4 38.5 1.0
N G:GLN117 4.5 36.0 1.0
CD G:GLN117 4.5 33.8 1.0
CA G:CYS114 4.5 39.5 1.0
SG G:CYS108 4.7 44.2 1.0
CB G:GLN110 4.7 46.6 1.0
SG G:CYS105 4.8 48.8 1.0
CB G:GLN117 4.8 33.0 1.0
CD2 G:LEU116 4.8 32.7 1.0
OE1 G:GLN117 4.9 41.7 1.0

Iron binding site 8 out of 16 in 8ca4

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Iron binding site 8 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe801

b:56.1
occ:1.00
 FE2 G:SF4801 0.0 56.1 1.0
S3 G:SF4801 2.3 56.2 1.0
S1 G:SF4801 2.3 54.5 1.0
S4 G:SF4801 2.3 42.9 1.0
SG G:CYS105 2.3 48.8 1.0
FE3 G:SF4801 2.7 56.0 1.0
FE1 G:SF4801 2.7 45.4 1.0
FE4 G:SF4801 2.7 47.9 1.0
CB G:CYS105 3.4 35.5 1.0
CA G:CYS105 3.5 31.5 1.0
N G:CYS105 3.9 35.6 1.0
S2 G:SF4801 3.9 47.0 1.0
OE1 G:GLN117 4.2 41.7 1.0
CG G:GLN117 4.4 37.1 1.0
NE2 G:HIS101 4.5 38.5 1.0
CD G:GLN117 4.5 33.8 1.0
C G:ASP104 4.6 36.3 1.0
CD2 G:HIS101 4.7 32.8 1.0
SG G:CYS108 4.7 44.2 1.0
CB G:CYS108 4.7 43.7 1.0
SG G:CYS114 4.8 42.7 1.0
C G:CYS105 4.8 35.5 1.0

Iron binding site 9 out of 16 in 8ca4

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Iron binding site 9 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe801

b:56.0
occ:1.00
 FE3 G:SF4801 0.0 56.0 1.0
NE2 G:HIS101 2.0 38.5 1.0
S4 G:SF4801 2.3 42.9 1.0
S2 G:SF4801 2.3 47.0 1.0
S1 G:SF4801 2.3 54.5 1.0
CD2 G:HIS101 2.7 32.8 1.0
FE1 G:SF4801 2.7 45.4 1.0
FE4 G:SF4801 2.7 47.9 1.0
FE2 G:SF4801 2.7 56.1 1.0
CE1 G:HIS101 3.1 32.4 1.0
S3 G:SF4801 3.9 56.2 1.0
CG G:HIS101 4.0 22.0 1.0
ND1 G:HIS101 4.1 21.6 1.0
CD2 G:LEU116 4.3 32.7 1.0
O G:PRO102 4.7 49.5 1.0
SG G:CYS114 4.7 42.7 1.0
SG G:CYS105 4.8 48.8 1.0
SG G:CYS108 4.8 44.2 1.0

Iron binding site 10 out of 16 in 8ca4

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Iron binding site 10 out of 16 in the Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe801

b:47.9
occ:1.00
 FE4 G:SF4801 0.0 47.9 1.0
SG G:CYS108 2.2 44.2 1.0
S2 G:SF4801 2.3 47.0 1.0
S3 G:SF4801 2.3 56.2 1.0
S1 G:SF4801 2.3 54.5 1.0
FE1 G:SF4801 2.7 45.4 1.0
FE3 G:SF4801 2.7 56.0 1.0
FE2 G:SF4801 2.7 56.1 1.0
CB G:CYS108 3.1 43.7 1.0
S4 G:SF4801 3.9 42.9 1.0
O G:GLN110 4.3 44.3 1.0
CB G:GLN110 4.3 46.6 1.0
NE2 G:HIS101 4.5 38.5 1.0
CA G:CYS108 4.6 35.0 1.0
CA G:CYS105 4.6 31.5 1.0
CD G:ARG152 4.6 34.1 1.0
N G:GLY206 4.7 33.8 1.0
SG G:CYS114 4.7 42.7 1.0
C G:GLN110 4.8 42.1 1.0
SG G:CYS105 4.8 48.8 1.0
N G:CYS105 4.9 35.6 1.0
CA G:GLY206 5.0 38.0 1.0
CA G:GLN110 5.0 47.4 1.0
N G:GLN110 5.0 43.1 1.0

Reference:

Z.Yin, A.N.A.Agip, H.Bridges, J.Hirst. Cryo-Em Structure NDUFS4 Knockout Complex I From Mus Musculus Heart (Class 2 N-Domain). To Be Published 2023.
DOI: 10.1038/S44318-023-00001-4
Page generated: Fri Aug 9 21:14:46 2024

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