Iron in PDB 8rgr: Closed Complex I From Murine Liver

Enzymatic activity of Closed Complex I From Murine Liver

All present enzymatic activity of Closed Complex I From Murine Liver:
7.1.1.2;

Other elements in 8rgr:

The structure of Closed Complex I From Murine Liver also contains other interesting chemical elements:

Potassium (K) 1 atom
Zinc (Zn) 1 atom
Magnesium (Mg) 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 Closed Complex I From Murine Liver (pdb code 8rgr). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Closed Complex I From Murine Liver, PDB code: 8rgr:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 8rgr

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Iron binding site 1 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
6:Fe201

b:82.5
occ:1.00
 FE1 6:SF4201 0.0 82.5 1.0
S2 6:SF4201 2.3 95.6 1.0
S3 6:SF4201 2.3 105.9 1.0
S4 6:SF4201 2.3 131.4 1.0
SG 6:CYS129 2.3 75.6 1.0
FE4 6:SF4201 2.6 83.2 1.0
FE3 6:SF4201 2.7 99.3 1.0
FE2 6:SF4201 2.7 122.0 1.0
CB 6:CYS129 3.2 64.3 1.0
S1 6:SF4201 3.9 95.3 1.0
OG1 6:THR101 3.9 80.5 1.0
N 6:CYS129 4.0 66.4 1.0
CA 6:CYS129 4.2 56.2 1.0
CQ2 D:2MR85 4.3 81.6 1.0
SG 6:CYS159 4.7 73.8 1.0
CE2 6:TYR136 4.8 60.1 1.0
SG 6:CYS65 4.9 78.0 1.0
SG 6:CYS64 4.9 69.2 1.0
N 6:THR101 5.0 65.2 1.0

Iron binding site 2 out of 28 in 8rgr

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Iron binding site 2 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
6:Fe201

b:122.0
occ:1.00
 FE2 6:SF4201 0.0 122.0 1.0
S4 6:SF4201 2.3 131.4 1.0
S1 6:SF4201 2.3 95.3 1.0
S3 6:SF4201 2.3 105.9 1.0
SG 6:CYS65 2.3 78.0 1.0
FE3 6:SF4201 2.7 99.3 1.0
FE4 6:SF4201 2.7 83.2 1.0
FE1 6:SF4201 2.7 82.5 1.0
CB 6:CYS65 3.4 71.5 1.0
N 6:CYS65 3.8 59.7 1.0
S2 6:SF4201 3.9 95.6 1.0
CA 6:CYS65 4.1 66.0 1.0
CA 6:PRO160 4.4 63.0 1.0
CA 6:GLY127 4.4 64.1 1.0
CB 6:PRO160 4.6 63.3 1.0
CA 6:CYS159 4.6 56.6 1.0
SG 6:CYS64 4.6 69.2 1.0
C 6:CYS64 4.7 69.8 1.0
CB 6:CYS64 4.8 82.9 1.0
N 6:PRO160 4.8 63.4 1.0
SG 6:CYS159 4.8 73.8 1.0
SG 6:CYS129 4.8 75.6 1.0
N 6:SER128 4.8 62.6 1.0
O 6:GLY158 4.9 75.6 1.0

Iron binding site 3 out of 28 in 8rgr

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Iron binding site 3 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
6:Fe201

b:99.3
occ:1.00
 FE3 6:SF4201 0.0 99.3 1.0
S1 6:SF4201 2.3 95.3 1.0
S4 6:SF4201 2.3 131.4 1.0
S2 6:SF4201 2.3 95.6 1.0
SG 6:CYS64 2.3 69.2 1.0
FE2 6:SF4201 2.7 122.0 1.0
FE1 6:SF4201 2.7 82.5 1.0
FE4 6:SF4201 2.7 83.2 1.0
CB 6:CYS64 3.3 82.9 1.0
NE2 D:HIS190 3.7 85.9 1.0
S3 6:SF4201 3.9 105.9 1.0
CQ2 D:2MR85 4.0 81.6 1.0
N 6:CYS64 4.1 68.2 1.0
CA 6:CYS64 4.2 65.8 1.0
N 6:CYS65 4.2 59.7 1.0
CB 6:ALA63 4.4 67.0 1.0
CD2 D:HIS190 4.5 91.8 1.0
CG D:ARG105 4.5 75.9 1.0
C 6:CYS64 4.6 69.8 1.0
SG 6:CYS65 4.7 78.0 1.0
CE1 D:HIS190 4.8 75.0 1.0
NH2 D:2MR85 4.8 79.8 1.0
SG 6:CYS129 4.8 75.6 1.0
SG 6:CYS159 4.9 73.8 1.0
CB D:ARG105 5.0 86.4 1.0

Iron binding site 4 out of 28 in 8rgr

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Iron binding site 4 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
6:Fe201

b:83.2
occ:1.00
 FE4 6:SF4201 0.0 83.2 1.0
S1 6:SF4201 2.3 95.3 1.0
S2 6:SF4201 2.3 95.6 1.0
S3 6:SF4201 2.3 105.9 1.0
SG 6:CYS159 2.3 73.8 1.0
FE1 6:SF4201 2.6 82.5 1.0
FE2 6:SF4201 2.7 122.0 1.0
FE3 6:SF4201 2.7 99.3 1.0
CB 6:CYS159 3.3 55.0 1.0
CA 6:CYS159 3.6 56.6 1.0
S4 6:SF4201 3.9 131.4 1.0
C 6:CYS159 3.9 64.4 1.0
NE D:ARG105 4.0 69.5 1.0
CD2 D:HIS190 4.2 91.8 1.0
NE2 D:HIS190 4.3 85.9 1.0
N 6:PRO160 4.4 63.4 1.0
O 6:CYS159 4.5 71.2 1.0
NH2 D:ARG105 4.6 61.5 1.0
SG 6:CYS129 4.7 75.6 1.0
CZ D:ARG105 4.8 59.7 1.0
CA 6:PRO160 4.8 63.0 1.0
CD D:ARG105 4.8 67.2 1.0
SG 6:CYS64 4.8 69.2 1.0
SG 6:CYS65 4.8 78.0 1.0
CG D:ARG105 4.9 75.9 1.0
N 6:CYS159 4.9 63.5 1.0
O 6:GLY158 4.9 75.6 1.0

Iron binding site 5 out of 28 in 8rgr

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Iron binding site 5 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe301

b:57.0
occ:1.00
 FE1 2:FES301 0.0 57.0 1.0
S2 2:FES301 2.2 61.6 1.0
S1 2:FES301 2.2 63.9 1.0
SG 2:CYS103 2.3 64.4 1.0
SG 2:CYS108 2.3 65.5 1.0
FE2 2:FES301 2.7 61.9 1.0
CB 2:CYS103 3.4 53.5 1.0
CB 2:CYS108 3.6 53.2 1.0
CA 2:CYS144 3.9 63.5 1.0
OG1 2:THR105 4.0 80.0 1.0
N 2:LEU145 4.2 44.8 1.0
CB 2:CYS144 4.4 59.3 1.0
N 2:CYS108 4.5 64.8 1.0
SG 2:CYS144 4.6 81.6 1.0
SG 2:CYS148 4.6 81.9 1.0
O 2:ALA147 4.6 89.7 1.0
CA 2:CYS108 4.6 62.0 1.0
CB 2:THR105 4.6 77.2 1.0
C 2:CYS144 4.7 52.6 1.0
SD 2:MET153 4.7 87.2 1.0
CA 2:CYS103 4.7 58.7 1.0
N 2:THR105 4.8 59.1 1.0
C 2:CYS103 4.8 62.4 1.0
N 2:CYS144 4.8 58.7 1.0
O 2:GLU143 4.9 72.5 1.0
CA 2:CYS148 4.9 67.9 1.0

Iron binding site 6 out of 28 in 8rgr

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Iron binding site 6 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Fe301

b:61.9
occ:1.00
 FE2 2:FES301 0.0 61.9 1.0
S2 2:FES301 2.2 61.6 1.0
S1 2:FES301 2.2 63.9 1.0
SG 2:CYS148 2.3 81.9 1.0
SG 2:CYS144 2.3 81.6 1.0
FE1 2:FES301 2.7 57.0 1.0
CB 2:CYS144 3.1 59.3 1.0
CA 2:CYS144 3.5 63.5 1.0
CB 2:CYS148 3.5 73.7 1.0
N 2:LEU145 3.7 44.8 1.0
N 2:GLY146 3.9 45.6 1.0
CA 2:CYS148 4.0 67.9 1.0
C 2:CYS144 4.0 52.6 1.0
N 2:CYS148 4.1 73.2 1.0
N 2:ALA147 4.2 58.7 1.0
C 2:ALA147 4.3 75.3 1.0
N 1:GLY103 4.3 62.0 1.0
SG 2:CYS103 4.4 64.4 1.0
O 2:ALA147 4.5 89.7 1.0
CA 2:GLY146 4.5 62.3 1.0
CA 1:PRO102 4.6 66.8 1.0
SG 2:CYS108 4.6 65.5 1.0
C 2:GLY146 4.7 71.6 1.0
C 2:LEU145 4.7 55.0 1.0
CG 2:PRO107 4.8 67.0 1.0
N 2:CYS144 4.8 58.7 1.0
CA 2:LEU145 4.8 46.7 1.0
OG1 2:THR105 4.9 80.0 1.0
CA 2:ALA147 5.0 67.3 1.0

Iron binding site 7 out of 28 in 8rgr

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Iron binding site 7 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe502

b:51.3
occ:1.00
 FE1 1:SF4502 0.0 51.3 1.0
S3 1:SF4502 2.3 50.9 1.0
S4 1:SF4502 2.3 66.0 1.0
SG 1:CYS365 2.3 64.5 1.0
S2 1:SF4502 2.3 49.2 1.0
FE3 1:SF4502 2.6 77.7 1.0
FE4 1:SF4502 2.7 63.9 1.0
FE2 1:SF4502 2.7 113.6 1.0
CB 1:CYS365 2.9 66.2 1.0
OG 1:SER358 3.6 56.6 1.0
S1 1:SF4502 3.9 67.4 1.0
CD2 1:LEU407 4.2 69.4 1.0
CA 1:CYS365 4.3 62.1 1.0
N 1:CYS359 4.3 52.4 1.0
CB 1:LEU407 4.4 50.8 1.0
CB 1:SER358 4.4 62.0 1.0
SG 1:CYS362 4.5 74.2 1.0
N 1:GLY360 4.5 66.8 1.0
C 1:CYS365 4.7 51.9 1.0
CA 1:SER358 4.7 57.8 1.0
N 1:ARG366 4.8 53.0 1.0
SG 1:CYS359 4.8 55.2 1.0
SG 1:CYS405 4.8 63.0 1.0
CG 1:LEU407 4.8 51.8 1.0
O 1:CYS362 5.0 71.9 1.0
C 1:SER358 5.0 56.7 1.0
N 1:GLY408 5.0 56.2 1.0

Iron binding site 8 out of 28 in 8rgr

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Iron binding site 8 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe502

b:113.6
occ:1.00
 FE2 1:SF4502 0.0 113.6 1.0
S4 1:SF4502 2.3 66.0 1.0
S1 1:SF4502 2.3 67.4 1.0
S3 1:SF4502 2.3 50.9 1.0
SG 1:CYS405 2.3 63.0 1.0
FE4 1:SF4502 2.6 63.9 1.0
FE1 1:SF4502 2.7 51.3 1.0
FE3 1:SF4502 2.8 77.7 1.0
CB 1:CYS405 3.4 59.5 1.0
S2 1:SF4502 3.9 49.2 1.0
N 1:CYS405 3.9 59.9 1.0
CB 1:LEU407 4.0 50.8 1.0
CG 1:PRO203 4.1 49.0 1.0
CA 1:CYS405 4.1 59.4 1.0
CD1 1:ILE185 4.3 48.0 1.0
C 1:CYS405 4.4 93.9 1.0
CD 1:PRO203 4.5 49.0 1.0
O 1:CYS405 4.5 87.3 1.0
N 1:LEU407 4.6 49.6 1.0
SG 1:CYS359 4.7 55.2 1.0
SG 1:CYS365 4.8 64.5 1.0
CG1 1:ILE185 4.9 53.0 1.0
CA 1:LEU407 4.9 53.3 1.0
SG 1:CYS362 4.9 74.2 1.0
N 1:ALA406 5.0 57.4 1.0

Iron binding site 9 out of 28 in 8rgr

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Iron binding site 9 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe502

b:77.7
occ:1.00
 FE3 1:SF4502 0.0 77.7 1.0
S4 1:SF4502 2.3 66.0 1.0
S2 1:SF4502 2.3 49.2 1.0
S1 1:SF4502 2.3 67.4 1.0
SG 1:CYS362 2.3 74.2 1.0
FE1 1:SF4502 2.6 51.3 1.0
FE4 1:SF4502 2.8 63.9 1.0
FE2 1:SF4502 2.8 113.6 1.0
CB 1:CYS362 3.4 56.2 1.0
N 1:CYS362 3.7 54.0 1.0
CB 1:CYS365 3.9 66.2 1.0
S3 1:SF4502 3.9 50.9 1.0
CA 1:CYS362 4.0 49.2 1.0
O 1:CYS362 4.2 71.9 1.0
N 1:ILE404 4.3 48.6 1.0
CB 1:ILE404 4.3 47.0 1.0
SG 1:CYS365 4.4 64.5 1.0
CB 1:THR403 4.5 63.6 1.0
C 1:CYS362 4.5 54.4 1.0
N 1:CYS405 4.6 59.9 1.0
CG1 1:ILE404 4.8 53.8 1.0
C 1:GLN361 4.8 56.5 1.0
N 1:GLN361 4.8 61.1 1.0
CA 1:ILE404 4.8 43.2 1.0
CB 1:GLN361 4.9 53.4 1.0
SG 1:CYS405 4.9 63.0 1.0
SG 1:CYS359 4.9 55.2 1.0

Iron binding site 10 out of 28 in 8rgr

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Iron binding site 10 out of 28 in the Closed Complex I From Murine Liver


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Closed Complex I From Murine Liver within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Fe502

b:63.9
occ:1.00
 FE4 1:SF4502 0.0 63.9 1.0
S2 1:SF4502 2.3 49.2 1.0
S3 1:SF4502 2.3 50.9 1.0
S1 1:SF4502 2.3 67.4 1.0
SG 1:CYS359 2.3 55.2 1.0
FE2 1:SF4502 2.6 113.6 1.0
FE1 1:SF4502 2.7 51.3 1.0
FE3 1:SF4502 2.8 77.7 1.0
CB 1:CYS359 3.4 44.0 1.0
N 1:GLN361 3.8 61.1 1.0
N 1:GLY360 3.9 66.8 1.0
N 1:CYS359 3.9 52.4 1.0
S4 1:SF4502 3.9 66.0 1.0
CA 1:CYS359 4.0 53.7 1.0
CD 1:PRO203 4.1 49.0 1.0
CB 1:GLN361 4.1 53.4 1.0
C 1:CYS359 4.1 59.5 1.0
CA 1:GLN361 4.5 53.9 1.0
N 1:CYS362 4.5 54.0 1.0
CG 1:PRO203 4.6 49.0 1.0
C 1:GLY360 4.7 76.5 1.0
OE1 1:GLN361 4.7 77.2 1.0
SG 1:CYS405 4.7 63.0 1.0
CG1 1:ILE185 4.8 53.0 1.0
CA 1:GLY360 4.8 78.9 1.0
OG 1:SER358 4.8 56.6 1.0
SG 1:CYS365 4.9 64.5 1.0
O 1:CYS359 4.9 57.5 1.0
SG 1:CYS362 4.9 74.2 1.0

Reference:

I.Vercellino, L.A.Sazanov. SCAF1 Drives the Compositional Diversity of Mammalian Respirasomes. Nat.Struct.Mol.Biol. 2024.
ISSN: ESSN 1545-9985
PubMed: 38575788
DOI: 10.1038/S41594-024-01255-0
Page generated: Sat Aug 10 17:07:50 2024

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