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Iron in PDB 7arc: Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)

Other elements in 7arc:

The structure of Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm) also contains other interesting chemical elements:

Zinc (Zn) 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 Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm) (pdb code 7arc). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 28 binding sites of Iron where determined in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm), PDB code: 7arc:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 7arc

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Iron binding site 1 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:41.2
occ:1.00
 FE1 B:SF4500 0.0 41.2 1.0
SG B:CYS104 2.3 21.2 1.0
S3 B:SF4500 2.3 41.2 1.0
S4 B:SF4500 2.3 41.2 1.0
S2 B:SF4500 2.3 41.2 1.0
FE3 B:SF4500 2.7 41.2 1.0
FE2 B:SF4500 2.7 41.2 1.0
FE4 B:SF4500 2.7 41.2 1.0
CB B:CYS104 3.2 21.2 1.0
S1 B:SF4500 3.9 41.2 1.0
OG1 B:THR76 3.9 25.0 1.0
N B:CYS104 4.2 21.2 1.0
CA B:CYS104 4.3 21.2 1.0
SG B:CYS134 4.5 27.2 1.0
SG B:CYS40 4.7 34.1 1.0
CB B:CYS39 4.8 34.7 1.0
N B:THR76 4.8 25.0 1.0
SG B:CYS39 4.9 34.7 1.0
CE2 B:TYR111 4.9 41.2 1.0

Iron binding site 2 out of 28 in 7arc

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Iron binding site 2 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:41.2
occ:1.00
 FE2 B:SF4500 0.0 41.2 1.0
SG B:CYS40 2.3 34.1 1.0
S4 B:SF4500 2.3 41.2 1.0
S3 B:SF4500 2.3 41.2 1.0
S1 B:SF4500 2.3 41.2 1.0
FE3 B:SF4500 2.7 41.2 1.0
FE1 B:SF4500 2.7 41.2 1.0
FE4 B:SF4500 2.7 41.2 1.0
CB B:CYS40 3.7 34.1 1.0
N B:CYS40 3.7 34.1 1.0
CB B:CYS39 3.7 34.7 1.0
S2 B:SF4500 3.9 41.2 1.0
CA B:CYS40 4.1 34.1 1.0
C B:CYS39 4.3 34.7 1.0
CA B:PRO135 4.4 27.6 1.0
CA B:CYS39 4.4 34.7 1.0
CB B:PRO135 4.5 27.6 1.0
N B:CYS39 4.6 34.7 1.0
CA B:GLY102 4.6 20.9 1.0
SG B:CYS39 4.8 34.7 1.0
CA B:CYS134 4.8 27.2 1.0
SG B:CYS134 4.8 27.2 1.0
SG B:CYS104 4.8 21.2 1.0
N B:PRO135 4.9 27.6 1.0
CD B:PRO136 4.9 26.9 1.0

Iron binding site 3 out of 28 in 7arc

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Iron binding site 3 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:41.2
occ:1.00
 FE3 B:SF4500 0.0 41.2 1.0
SG B:CYS134 2.3 27.2 1.0
S1 B:SF4500 2.3 41.2 1.0
S2 B:SF4500 2.3 41.2 1.0
S4 B:SF4500 2.3 41.2 1.0
FE1 B:SF4500 2.7 41.2 1.0
FE2 B:SF4500 2.7 41.2 1.0
FE4 B:SF4500 2.7 41.2 1.0
CB B:CYS134 3.4 27.2 1.0
CA B:CYS134 3.6 27.2 1.0
S3 B:SF4500 3.9 41.2 1.0
C B:CYS134 3.9 27.2 1.0
NE D:ARG70 4.1 24.1 1.0
NE2 D:HIS155 4.2 34.0 1.0
CD2 D:HIS155 4.2 34.0 1.0
N B:PRO135 4.3 27.6 1.0
O B:CYS134 4.5 27.2 1.0
SG B:CYS104 4.5 21.2 1.0
CB B:CYS39 4.5 34.7 1.0
CA B:PRO135 4.6 27.6 1.0
SG B:CYS39 4.7 34.7 1.0
CG D:ARG70 4.7 24.1 1.0
CD D:ARG70 4.8 24.1 1.0
SG B:CYS40 4.8 34.1 1.0
NH2 D:ARG70 4.8 24.1 1.0
O B:GLY133 4.9 23.4 1.0
N B:CYS134 4.9 27.2 1.0
CZ D:ARG70 4.9 24.1 1.0

Iron binding site 4 out of 28 in 7arc

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Iron binding site 4 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:41.2
occ:1.00
 FE4 B:SF4500 0.0 41.2 1.0
CB B:CYS39 2.2 34.7 1.0
S2 B:SF4500 2.3 41.2 1.0
S1 B:SF4500 2.3 41.2 1.0
S3 B:SF4500 2.3 41.2 1.0
SG B:CYS39 2.3 34.7 1.0
FE3 B:SF4500 2.7 41.2 1.0
FE2 B:SF4500 2.7 41.2 1.0
FE1 B:SF4500 2.7 41.2 1.0
CA B:CYS39 3.5 34.7 1.0
N B:CYS39 3.6 34.7 1.0
NE2 D:HIS155 3.7 34.0 1.0
S4 B:SF4500 3.9 41.2 1.0
C B:CYS39 4.3 34.7 1.0
N B:CYS40 4.4 34.1 1.0
CG D:ARG70 4.6 24.1 1.0
CD2 D:HIS155 4.6 34.0 1.0
CE1 D:HIS155 4.6 34.0 1.0
CB B:ALA38 4.8 30.4 1.0
SG B:CYS40 4.8 34.1 1.0
C B:ALA38 4.8 30.4 1.0
SG B:CYS104 4.8 21.2 1.0
SG B:CYS134 4.8 27.2 1.0

Iron binding site 5 out of 28 in 7arc

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Iron binding site 5 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe500

b:47.0
occ:1.00
 FE1 E:FES500 0.0 47.0 1.0
S1 E:FES500 2.2 47.0 1.0
S2 E:FES500 2.2 47.0 1.0
SG E:CYS148 2.3 42.9 1.0
SG E:CYS143 2.3 40.8 1.0
FE2 E:FES500 2.7 47.0 1.0
CB E:CYS143 3.4 40.8 1.0
CB E:CYS148 3.7 42.9 1.0
CA E:CYS184 3.8 39.7 1.0
N E:MET185 4.1 41.5 1.0
SG E:CYS184 4.3 39.7 1.0
CB E:CYS184 4.3 39.7 1.0
N E:CYS148 4.5 42.9 1.0
CB E:THR145 4.5 39.5 1.0
C E:CYS184 4.5 39.7 1.0
N E:CYS184 4.7 39.7 1.0
CA E:CYS148 4.7 42.9 1.0
CA E:CYS143 4.8 40.8 1.0
O E:ALA191 4.8 50.3 1.0
SG E:CYS188 4.8 45.4 1.0
CG E:MET193 4.9 47.8 1.0
N E:THR145 4.9 39.5 1.0
SD E:MET193 4.9 47.8 1.0
O E:GLU183 4.9 39.4 1.0
C E:CYS143 4.9 40.8 1.0

Iron binding site 6 out of 28 in 7arc

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Iron binding site 6 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe500

b:47.0
occ:1.00
 FE2 E:FES500 0.0 47.0 1.0
S1 E:FES500 2.2 47.0 1.0
S2 E:FES500 2.2 47.0 1.0
SG E:CYS188 2.3 45.4 1.0
SG E:CYS184 2.3 39.7 1.0
FE1 E:FES500 2.7 47.0 1.0
CB E:CYS184 3.4 39.7 1.0
CB E:CYS188 3.6 45.4 1.0
O F:PRO130 3.6 41.1 1.0
CA E:CYS188 3.7 45.4 1.0
N E:CYS188 3.8 45.4 1.0
CA E:CYS184 3.8 39.7 1.0
N E:ALA187 4.0 45.8 1.0
N E:MET185 4.0 41.5 1.0
N E:GLY186 4.2 43.4 1.0
C E:ALA187 4.2 45.8 1.0
C E:CYS184 4.3 39.7 1.0
SG E:CYS148 4.3 42.9 1.0
C F:PRO130 4.5 41.1 1.0
SG E:CYS143 4.6 40.8 1.0
O E:ALA187 4.6 45.8 1.0
CA E:ALA187 4.7 45.8 1.0
CA E:GLY186 4.7 43.4 1.0
C E:GLY186 4.8 43.4 1.0
CB E:PRO147 4.9 39.9 1.0
CG E:PRO147 4.9 39.9 1.0

Iron binding site 7 out of 28 in 7arc

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Iron binding site 7 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:41.2
occ:1.00
 FE1 F:SF4501 0.0 41.2 1.0
SG F:CYS390 2.2 41.2 1.0
S3 F:SF4501 2.3 41.2 1.0
S2 F:SF4501 2.3 41.2 1.0
S4 F:SF4501 2.3 41.2 1.0
FE2 F:SF4501 2.7 41.2 1.0
FE4 F:SF4501 2.7 41.2 1.0
FE3 F:SF4501 2.7 41.2 1.0
CB F:CYS390 3.4 41.2 1.0
N F:CYS390 3.6 41.2 1.0
CB F:CYS393 3.7 24.3 1.0
S1 F:SF4501 3.9 41.2 1.0
CA F:CYS390 4.1 41.2 1.0
N F:ILE432 4.2 21.5 1.0
CB F:ILE432 4.4 21.5 1.0
O F:CYS390 4.5 41.2 1.0
SG F:CYS393 4.5 24.3 1.0
CB F:THR431 4.6 25.9 1.0
CD1 F:ILE432 4.6 21.5 1.0
CB F:GLN389 4.7 30.8 1.0
C F:CYS390 4.7 41.2 1.0
SG F:CYS433 4.7 28.0 1.0
C F:GLN389 4.7 30.8 1.0
CG1 F:ILE432 4.7 21.5 1.0
N F:GLN389 4.8 30.8 1.0
N F:CYS433 4.8 28.0 1.0
CA F:ILE432 4.8 21.5 1.0
CG2 F:THR431 4.8 25.9 1.0
SG F:CYS387 4.9 25.8 1.0
CA F:GLN389 5.0 30.8 1.0
CA F:CYS393 5.0 24.3 1.0

Iron binding site 8 out of 28 in 7arc

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Iron binding site 8 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:41.2
occ:1.00
 FE2 F:SF4501 0.0 41.2 1.0
SG F:CYS393 2.3 24.3 1.0
S1 F:SF4501 2.3 41.2 1.0
S3 F:SF4501 2.3 41.2 1.0
S4 F:SF4501 2.3 41.2 1.0
CB F:CYS393 2.6 24.3 1.0
FE1 F:SF4501 2.7 41.2 1.0
FE4 F:SF4501 2.7 41.2 1.0
FE3 F:SF4501 2.7 41.2 1.0
OG F:SER386 3.3 28.4 1.0
S2 F:SF4501 3.9 41.2 1.0
CA F:CYS393 4.1 24.3 1.0
CB F:SER386 4.3 28.4 1.0
SG F:CYS390 4.3 41.2 1.0
CD2 F:LEU435 4.3 30.2 1.0
CB F:LEU435 4.4 30.2 1.0
CA F:SER386 4.5 28.4 1.0
N F:CYS387 4.6 25.8 1.0
C F:CYS393 4.6 24.3 1.0
CG F:LEU435 4.7 30.2 1.0
SG F:CYS387 4.7 25.8 1.0
SG F:CYS433 4.8 28.0 1.0
N F:ARG394 4.8 23.1 1.0
N F:GLY436 4.8 31.6 1.0
N F:GLY388 4.9 26.1 1.0
N F:CYS393 4.9 24.3 1.0

Iron binding site 9 out of 28 in 7arc

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Iron binding site 9 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:41.2
occ:1.00
 FE3 F:SF4501 0.0 41.2 1.0
SG F:CYS387 2.2 25.8 1.0
S1 F:SF4501 2.3 41.2 1.0
S4 F:SF4501 2.3 41.2 1.0
S2 F:SF4501 2.3 41.2 1.0
FE4 F:SF4501 2.7 41.2 1.0
FE1 F:SF4501 2.7 41.2 1.0
FE2 F:SF4501 2.7 41.2 1.0
N F:GLN389 3.7 30.8 1.0
CB F:CYS387 3.8 25.8 1.0
CB F:GLN389 3.9 30.8 1.0
N F:CYS387 3.9 25.8 1.0
S3 F:SF4501 3.9 41.2 1.0
N F:GLY388 3.9 26.1 1.0
CA F:CYS387 4.2 25.8 1.0
CA F:GLN389 4.3 30.8 1.0
CD F:PRO231 4.4 26.7 1.0
C F:CYS387 4.4 25.8 1.0
N F:CYS390 4.5 41.2 1.0
OG F:SER386 4.5 28.4 1.0
OE1 F:GLN389 4.6 30.8 1.0
C F:GLY388 4.6 26.1 1.0
SG F:CYS433 4.7 28.0 1.0
CA F:GLY388 4.7 26.1 1.0
SG F:CYS390 4.8 41.2 1.0
SG F:CYS393 4.9 24.3 1.0
C F:SER386 4.9 28.4 1.0
CG F:PRO231 5.0 26.7 1.0
C F:GLN389 5.0 30.8 1.0
CB F:CYS393 5.0 24.3 1.0
CD1 F:ILE213 5.0 29.1 1.0

Iron binding site 10 out of 28 in 7arc

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Iron binding site 10 out of 28 in the Cryo-Em Structure of Polytomella Complex-I (Peripheral Arm)


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 of Polytomella Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:41.2
occ:1.00
 FE4 F:SF4501 0.0 41.2 1.0
SG F:CYS433 2.2 28.0 1.0
S3 F:SF4501 2.3 41.2 1.0
S1 F:SF4501 2.3 41.2 1.0
S2 F:SF4501 2.3 41.2 1.0
FE3 F:SF4501 2.7 41.2 1.0
FE1 F:SF4501 2.7 41.2 1.0
FE2 F:SF4501 2.7 41.2 1.0
CB F:CYS433 3.8 28.0 1.0
S4 F:SF4501 3.9 41.2 1.0
N F:CYS433 4.0 28.0 1.0
CB F:LEU435 4.2 30.2 1.0
CD1 F:ILE213 4.3 29.1 1.0
CG F:PRO231 4.3 26.7 1.0
CA F:CYS433 4.3 28.0 1.0
SG F:CYS387 4.5 25.8 1.0
C F:CYS433 4.6 28.0 1.0
CD F:PRO231 4.6 26.7 1.0
N F:LEU435 4.7 30.2 1.0
O F:CYS433 4.7 28.0 1.0
SG F:CYS393 4.7 24.3 1.0
SG F:CYS390 4.8 41.2 1.0
CB F:CYS393 4.9 24.3 1.0
CD2 F:LEU435 5.0 30.2 1.0
CB F:PRO231 5.0 26.7 1.0
CA F:LEU435 5.0 30.2 1.0

Reference:

N.Klusch, J.Senkler, O.Yildiz, W.Kuhlbrandt, H.P.Braun. A Ferredoxin Bridge Connects the Two Arms of Plant Mitochondrial Complex I. Plant Cell V. 33 2072 2021.
ISSN: ESSN 1532-298X
PubMed: 33768254
DOI: 10.1093/PLCELL/KOAB092
Page generated: Wed Aug 7 22:34:55 2024

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