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Iron in PDB 7aqr: Cryo-Em Structure of Arabidopsis Thaliana Complex-I (Peripheral Arm)

Enzymatic activity of Cryo-Em Structure of Arabidopsis Thaliana Complex-I (Peripheral Arm)

All present enzymatic activity of Cryo-Em Structure of Arabidopsis Thaliana Complex-I (Peripheral Arm):
7.1.1.2;

Other elements in 7aqr:

The structure of Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) (pdb code 7aqr). 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 Arabidopsis Thaliana Complex-I (Peripheral Arm), PDB code: 7aqr:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 28 in 7aqr

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Iron binding site 1 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:35.3
occ:1.00
 FE1 B:SF4500 0.0 35.3 1.0
SG B:CYS158 2.3 27.9 1.0
S3 B:SF4500 2.3 35.3 1.0
S2 B:SF4500 2.3 35.3 1.0
S4 B:SF4500 2.3 35.3 1.0
FE4 B:SF4500 2.7 35.3 1.0
FE3 B:SF4500 2.7 35.3 1.0
FE2 B:SF4500 2.7 35.3 1.0
CB B:CYS158 2.8 27.9 1.0
N B:CYS158 3.6 27.9 1.0
CA B:CYS158 3.8 27.9 1.0
S1 B:SF4500 3.9 35.3 1.0
OG1 B:THR130 4.0 31.7 1.0
SG B:CYS188 4.7 31.7 1.0
C B:SER157 4.8 28.5 1.0
N B:SER157 4.8 28.5 1.0
SG B:CYS94 4.8 35.8 1.0
SG B:CYS93 4.9 37.9 1.0
N B:THR130 4.9 31.7 1.0
C B:CYS158 5.0 27.9 1.0

Iron binding site 2 out of 28 in 7aqr

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Iron binding site 2 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:35.3
occ:1.00
 FE2 B:SF4500 0.0 35.3 1.0
SG B:CYS94 2.3 35.8 1.0
S1 B:SF4500 2.3 35.3 1.0
S3 B:SF4500 2.3 35.3 1.0
S4 B:SF4500 2.3 35.3 1.0
FE4 B:SF4500 2.7 35.3 1.0
FE3 B:SF4500 2.7 35.3 1.0
FE1 B:SF4500 2.7 35.3 1.0
SG B:CYS93 3.7 37.9 1.0
CB B:CYS94 3.8 35.8 1.0
S2 B:SF4500 3.9 35.3 1.0
N B:CYS94 4.1 35.8 1.0
CA B:GLY156 4.3 27.9 1.0
CA B:CYS94 4.4 35.8 1.0
CA B:PRO189 4.5 33.3 1.0
CB B:PRO189 4.6 33.3 1.0
CA B:CYS188 4.7 31.7 1.0
N B:SER157 4.7 28.5 1.0
CB B:CYS158 4.8 27.9 1.0
CD B:PRO190 4.8 31.4 1.0
SG B:CYS188 4.8 31.7 1.0
N B:CYS158 4.9 27.9 1.0
O B:GLY187 4.9 30.1 1.0
C B:GLY156 4.9 27.9 1.0
SG B:CYS158 4.9 27.9 1.0
C B:CYS93 5.0 37.9 1.0
N B:PRO189 5.0 33.3 1.0

Iron binding site 3 out of 28 in 7aqr

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Iron binding site 3 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:35.3
occ:1.00
 FE3 B:SF4500 0.0 35.3 1.0
SG B:CYS188 2.3 31.7 1.0
S1 B:SF4500 2.3 35.3 1.0
S2 B:SF4500 2.3 35.3 1.0
S4 B:SF4500 2.3 35.3 1.0
FE1 B:SF4500 2.7 35.3 1.0
FE4 B:SF4500 2.7 35.3 1.0
FE2 B:SF4500 2.7 35.3 1.0
CB B:CYS188 3.3 31.7 1.0
CA B:CYS188 3.5 31.7 1.0
S3 B:SF4500 3.9 35.3 1.0
C B:CYS188 3.9 31.7 1.0
SG B:CYS93 4.0 37.9 1.0
NE D:ARG69 4.3 34.0 1.0
O B:CYS188 4.4 31.7 1.0
N B:PRO189 4.4 33.3 1.0
CD2 D:HIS154 4.6 37.3 1.0
SG B:CYS158 4.6 27.9 1.0
O B:GLY187 4.7 30.1 1.0
CA B:PRO189 4.7 33.3 1.0
NE2 D:HIS154 4.8 37.3 1.0
N B:CYS188 4.8 31.7 1.0
SG B:CYS94 4.8 35.8 1.0
NH2 D:ARG69 4.8 34.0 1.0
N B:SER157 5.0 28.5 1.0

Iron binding site 4 out of 28 in 7aqr

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Iron binding site 4 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe500

b:35.3
occ:1.00
 FE4 B:SF4500 0.0 35.3 1.0
SG B:CYS93 2.2 37.9 1.0
S3 B:SF4500 2.3 35.3 1.0
S2 B:SF4500 2.3 35.3 1.0
S1 B:SF4500 2.3 35.3 1.0
FE1 B:SF4500 2.7 35.3 1.0
FE2 B:SF4500 2.7 35.3 1.0
FE3 B:SF4500 2.7 35.3 1.0
CB B:CYS93 3.8 37.9 1.0
S4 B:SF4500 3.9 35.3 1.0
N B:CYS93 4.1 37.9 1.0
NE2 D:HIS154 4.1 37.3 1.0
CA B:CYS93 4.4 37.9 1.0
CB B:ALA92 4.4 36.0 1.0
CG D:ARG69 4.4 34.0 1.0
N B:CYS94 4.5 35.8 1.0
SG B:CYS94 4.6 35.8 1.0
SG B:CYS158 4.6 27.9 1.0
CD2 D:HIS154 4.8 37.3 1.0
SG B:CYS188 4.8 31.7 1.0
C B:CYS93 4.8 37.9 1.0

Iron binding site 5 out of 28 in 7aqr

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Iron binding site 5 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe500

b:105.5
occ:1.00
 FE1 E:FES500 0.0 105.5 1.0
S2 E:FES500 2.2 105.5 1.0
SD E:MET169 2.2 83.6 1.0
S1 E:FES500 2.2 105.5 1.0
CE E:MET169 2.3 83.6 1.0
SG E:CYS171 2.3 81.5 1.0
FE2 E:FES500 2.7 105.5 1.0
CG E:MET169 3.2 83.6 1.0
CB E:CYS171 3.5 81.5 1.0
CA E:CYS171 3.9 81.5 1.0
CA E:GLY131 4.1 98.2 1.0
SG E:CYS135 4.3 99.0 1.0
N E:CYS171 4.4 81.5 1.0
O E:MET180 4.4 90.2 1.0
CB E:MET169 4.5 83.6 1.0
CB E:MET180 4.8 90.2 1.0
OG1 E:THR132 4.8 94.9 1.0
C E:GLY131 4.8 98.2 1.0
O E:CYS130 4.8 93.5 1.0
SG E:CYS175 4.9 95.0 1.0
O E:VAL129 4.9 84.2 1.0
N E:THR132 5.0 94.9 1.0

Iron binding site 6 out of 28 in 7aqr

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Iron binding site 6 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe500

b:105.5
occ:1.00
 FE2 E:FES500 0.0 105.5 1.0
S1 E:FES500 2.2 105.5 1.0
S2 E:FES500 2.2 105.5 1.0
SG E:CYS175 2.3 95.0 1.0
SG E:CYS135 2.4 99.0 1.0
FE1 E:FES500 2.7 105.5 1.0
SG E:CYS171 3.0 81.5 1.0
CB E:CYS171 3.3 81.5 1.0
CE E:MET180 3.4 90.2 1.0
CB E:CYS175 3.5 95.0 1.0
CB E:CYS135 3.8 99.0 1.0
CE E:MET169 4.2 83.6 1.0
CA E:CYS171 4.2 81.5 1.0
O E:ALA178 4.5 99.1 1.0
CA E:CYS175 4.6 95.0 1.0
SD E:MET169 4.8 83.6 1.0
CB E:MET180 4.9 90.2 1.0
SD E:MET180 4.9 90.2 1.0

Iron binding site 7 out of 28 in 7aqr

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Iron binding site 7 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:27.8
occ:1.00
 FE1 F:SF4501 0.0 27.8 1.0
SG F:CYS405 2.3 27.7 1.0
S2 F:SF4501 2.3 27.8 1.0
S4 F:SF4501 2.3 27.8 1.0
S3 F:SF4501 2.3 27.8 1.0
FE2 F:SF4501 2.7 27.8 1.0
FE3 F:SF4501 2.7 27.8 1.0
FE4 F:SF4501 2.7 27.8 1.0
CB F:CYS405 3.5 27.7 1.0
N F:CYS405 3.6 27.7 1.0
CB F:CYS408 3.7 35.8 1.0
S1 F:SF4501 3.9 27.8 1.0
CA F:CYS405 4.0 27.7 1.0
N F:ILE447 4.3 26.7 1.0
O F:CYS405 4.4 27.7 1.0
SG F:CYS408 4.4 35.8 1.0
CB F:ILE447 4.5 26.7 1.0
CB F:THR446 4.6 29.5 1.0
C F:CYS405 4.6 27.7 1.0
N F:GLN404 4.6 26.7 1.0
CB F:GLN404 4.6 26.7 1.0
C F:GLN404 4.7 26.7 1.0
CG1 F:ILE447 4.7 26.7 1.0
SG F:CYS448 4.8 27.4 1.0
SG F:CYS402 4.9 28.7 1.0
CA F:GLN404 4.9 26.7 1.0
CD1 F:ILE447 4.9 26.7 1.0
N F:CYS448 4.9 27.4 1.0
CA F:CYS408 4.9 35.8 1.0
CA F:ILE447 5.0 26.7 1.0

Iron binding site 8 out of 28 in 7aqr

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Iron binding site 8 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:27.8
occ:1.00
 FE2 F:SF4501 0.0 27.8 1.0
SG F:CYS408 2.3 35.8 1.0
S3 F:SF4501 2.3 27.8 1.0
S1 F:SF4501 2.3 27.8 1.0
S4 F:SF4501 2.3 27.8 1.0
FE1 F:SF4501 2.7 27.8 1.0
FE3 F:SF4501 2.7 27.8 1.0
CB F:CYS408 2.7 35.8 1.0
FE4 F:SF4501 2.7 27.8 1.0
OG F:SER401 3.2 32.2 1.0
S2 F:SF4501 3.9 27.8 1.0
CD2 F:LEU450 4.0 33.6 1.0
CB F:SER401 4.1 32.2 1.0
CA F:CYS408 4.2 35.8 1.0
SG F:CYS405 4.5 27.7 1.0
CA F:SER401 4.5 32.2 1.0
CB F:LEU450 4.5 33.6 1.0
N F:CYS402 4.5 28.7 1.0
C F:CYS408 4.6 35.8 1.0
SG F:CYS402 4.7 28.7 1.0
CG F:LEU450 4.8 33.6 1.0
SG F:CYS448 4.8 27.4 1.0
N F:GLY403 4.8 30.3 1.0
N F:GLY451 4.9 34.7 1.0
N F:ARG409 4.9 25.3 1.0
C F:SER401 5.0 32.2 1.0

Iron binding site 9 out of 28 in 7aqr

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Iron binding site 9 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:27.8
occ:1.00
 FE3 F:SF4501 0.0 27.8 1.0
SG F:CYS402 2.3 28.7 1.0
S2 F:SF4501 2.3 27.8 1.0
S4 F:SF4501 2.3 27.8 1.0
S1 F:SF4501 2.3 27.8 1.0
FE4 F:SF4501 2.7 27.8 1.0
FE1 F:SF4501 2.7 27.8 1.0
FE2 F:SF4501 2.7 27.8 1.0
N F:GLN404 3.7 26.7 1.0
CB F:CYS402 3.8 28.7 1.0
N F:CYS402 3.8 28.7 1.0
S3 F:SF4501 3.9 27.8 1.0
CB F:GLN404 3.9 26.7 1.0
N F:GLY403 3.9 30.3 1.0
CA F:CYS402 4.2 28.7 1.0
C F:CYS402 4.4 28.7 1.0
CA F:GLN404 4.4 26.7 1.0
OG F:SER401 4.4 32.2 1.0
CD F:PRO246 4.4 28.7 1.0
N F:CYS405 4.5 27.7 1.0
OE1 F:GLN404 4.6 26.7 1.0
C F:GLY403 4.7 30.3 1.0
SG F:CYS448 4.7 27.4 1.0
CA F:GLY403 4.7 30.3 1.0
SG F:CYS405 4.9 27.7 1.0
SG F:CYS408 4.9 35.8 1.0
C F:SER401 4.9 32.2 1.0
CG F:PRO246 5.0 28.7 1.0

Iron binding site 10 out of 28 in 7aqr

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Iron binding site 10 out of 28 in the Cryo-Em Structure of Arabidopsis Thaliana 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 Arabidopsis Thaliana Complex-I (Peripheral Arm) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe501

b:27.8
occ:1.00
 FE4 F:SF4501 0.0 27.8 1.0
SG F:CYS448 2.3 27.4 1.0
S3 F:SF4501 2.3 27.8 1.0
S1 F:SF4501 2.3 27.8 1.0
S2 F:SF4501 2.3 27.8 1.0
FE3 F:SF4501 2.7 27.8 1.0
FE1 F:SF4501 2.7 27.8 1.0
FE2 F:SF4501 2.7 27.8 1.0
CB F:CYS448 3.8 27.4 1.0
S4 F:SF4501 3.9 27.8 1.0
N F:CYS448 4.0 27.4 1.0
CB F:LEU450 4.1 33.6 1.0
CA F:CYS448 4.3 27.4 1.0
CD1 F:ILE228 4.4 34.6 1.0
CG F:PRO246 4.4 28.7 1.0
SG F:CYS402 4.6 28.7 1.0
C F:CYS448 4.6 27.4 1.0
N F:LEU450 4.7 33.6 1.0
SG F:CYS408 4.7 35.8 1.0
CD F:PRO246 4.7 28.7 1.0
O F:CYS448 4.8 27.4 1.0
SG F:CYS405 4.8 27.7 1.0
CB F:CYS408 4.9 35.8 1.0
CA F:LEU450 4.9 33.6 1.0
N F:GLY451 5.0 34.7 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: Fri Dec 17 09:25:49 2021

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