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Iron in PDB 7yca: Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri

Enzymatic activity of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri

All present enzymatic activity of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri:
1.97.1.12;

Other elements in 7yca:

The structure of Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri also contains other interesting chemical elements:

Magnesium (Mg) 315 atoms

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Iron atom in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri (pdb code 7yca). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri, PDB code: 7yca:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 12 in 7yca

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Iron binding site 1 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:35.5
occ:1.00
 FE1 A:SF4853 0.0 35.5 1.0
S3 A:SF4853 2.2 7.5 1.0
S4 A:SF4853 2.2 27.6 1.0
S2 A:SF4853 2.2 15.3 1.0
SG B:CYS558 2.3 21.2 1.0
FE4 A:SF4853 3.1 35.6 1.0
FE3 A:SF4853 3.1 37.7 1.0
FE2 A:SF4853 3.1 39.6 1.0
CB B:CYS558 3.4 20.8 1.0
CD1 B:ILE701 3.8 19.1 1.0
S1 A:SF4853 3.8 24.0 1.0
N A:PRO578 4.1 16.1 1.0
SG A:CYS584 4.1 25.2 1.0
CB A:PRO578 4.2 26.1 1.0
CA A:PRO578 4.3 21.8 1.0
C A:GLY577 4.4 18.1 1.0
CD A:PRO578 4.4 22.2 1.0
SG A:CYS575 4.6 34.9 1.0
O A:GLY577 4.6 28.0 1.0
CA B:CYS558 4.7 19.4 1.0
CG A:PRO578 4.8 27.8 1.0
N B:CYS558 4.8 31.6 1.0
CA A:GLY577 5.0 18.7 1.0

Iron binding site 2 out of 12 in 7yca

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Iron binding site 2 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:39.6
occ:1.00
 FE2 A:SF4853 0.0 39.6 1.0
S1 A:SF4853 2.2 24.0 1.0
S3 A:SF4853 2.2 7.5 1.0
S4 A:SF4853 2.2 27.6 1.0
SG A:CYS584 2.3 25.2 1.0
CB A:CYS584 2.8 26.5 1.0
FE3 A:SF4853 3.1 37.7 1.0
FE4 A:SF4853 3.1 35.6 1.0
FE1 A:SF4853 3.1 35.5 1.0
CA A:CYS584 3.4 15.7 1.0
CE3 B:TRP666 3.7 18.7 1.0
S2 A:SF4853 3.8 15.3 1.0
CZ3 B:TRP666 3.9 21.0 1.0
N A:CYS584 4.1 19.6 1.0
CB A:CYS575 4.1 29.0 1.0
NH2 A:ARG724 4.1 19.0 1.0
SG A:CYS575 4.4 34.9 1.0
SG B:CYS567 4.5 29.0 1.0
CD1 B:ILE701 4.6 19.1 1.0
C A:CYS584 4.7 21.1 1.0
CD2 B:TRP666 4.9 10.8 1.0
C A:THR583 4.9 22.3 1.0
N A:GLN585 5.0 11.7 1.0

Iron binding site 3 out of 12 in 7yca

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Iron binding site 3 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:37.7
occ:1.00
 FE3 A:SF4853 0.0 37.7 1.0
SG B:CYS567 1.9 29.0 1.0
S2 A:SF4853 2.2 15.3 1.0
S4 A:SF4853 2.2 27.6 1.0
S1 A:SF4853 2.2 24.0 1.0
CB B:CYS567 2.9 19.9 1.0
FE2 A:SF4853 3.1 39.6 1.0
FE1 A:SF4853 3.1 35.5 1.0
FE4 A:SF4853 3.1 35.6 1.0
CA B:CYS567 3.4 19.6 1.0
S3 A:SF4853 3.8 7.5 1.0
N B:CYS567 3.8 22.0 1.0
CZ3 B:TRP666 4.1 21.0 1.0
CB B:CYS558 4.2 20.8 1.0
SG B:CYS558 4.3 21.2 1.0
CD1 A:ILE720 4.3 18.3 1.0
C B:THR566 4.6 20.2 1.0
C B:CYS567 4.8 23.3 1.0
CE3 B:TRP666 4.8 18.7 1.0
CH2 B:TRP666 4.9 20.5 1.0
CG2 A:ILE720 4.9 27.3 1.0
O B:THR566 5.0 25.6 1.0

Iron binding site 4 out of 12 in 7yca

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Iron binding site 4 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:35.6
occ:1.00
 FE4 A:SF4853 0.0 35.6 1.0
SG A:CYS575 2.0 34.9 1.0
S1 A:SF4853 2.2 24.0 1.0
S2 A:SF4853 2.2 15.3 1.0
S3 A:SF4853 2.2 7.5 1.0
CB A:CYS575 3.0 29.0 1.0
FE1 A:SF4853 3.1 35.5 1.0
FE3 A:SF4853 3.1 37.7 1.0
FE2 A:SF4853 3.1 39.6 1.0
S4 A:SF4853 3.8 27.6 1.0
N B:PRO561 4.3 30.3 1.0
CD1 A:ILE720 4.3 18.3 1.0
CB B:PRO561 4.3 19.2 1.0
CA A:CYS575 4.3 22.9 1.0
SG B:CYS567 4.4 29.0 1.0
CD B:PRO561 4.4 29.4 1.0
CA B:PRO561 4.5 22.8 1.0
C B:GLY560 4.6 23.4 1.0
SG B:CYS558 4.6 21.2 1.0
N A:GLY577 4.6 21.6 1.0
N A:CYS575 4.6 26.2 1.0
CA A:GLY577 4.7 18.7 1.0
CG B:PRO561 4.7 24.1 1.0
O B:GLY560 4.9 24.6 1.0
C A:GLY577 4.9 18.1 1.0
C A:CYS575 4.9 24.4 1.0
C A:PRO574 5.0 18.7 1.0

Iron binding site 5 out of 12 in 7yca

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Iron binding site 5 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:51.7
occ:1.00
 FE1 C:SF4101 0.0 51.7 1.0
S4 C:SF4101 2.2 37.4 1.0
S2 C:SF4101 2.2 33.2 1.0
S3 C:SF4101 2.2 36.3 1.0
SG C:CYS54 2.3 30.9 1.0
FE4 C:SF4101 3.1 41.5 1.0
FE3 C:SF4101 3.1 46.0 1.0
FE2 C:SF4101 3.1 48.4 1.0
CB C:CYS54 3.5 27.6 1.0
CG2 C:VAL67 3.6 30.7 1.0
S1 C:SF4101 3.8 30.1 1.0
N C:CYS54 3.9 24.9 1.0
N C:LYS52 4.1 22.2 1.0
CA C:LYS52 4.2 23.7 1.0
N C:ARG53 4.3 29.9 1.0
CA C:CYS54 4.3 25.2 1.0
C C:LYS52 4.5 26.8 1.0
CD1 C:LEU26 4.7 36.2 1.0
CB C:VAL67 4.9 24.0 1.0
SG C:CYS51 4.9 29.4 1.0
SG C:CYS48 5.0 44.4 1.0
C C:ARG53 5.0 28.7 1.0

Iron binding site 6 out of 12 in 7yca

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Iron binding site 6 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:48.4
occ:1.00
 FE2 C:SF4101 0.0 48.4 1.0
S3 C:SF4101 2.2 36.3 1.0
S4 C:SF4101 2.2 37.4 1.0
S1 C:SF4101 2.2 30.1 1.0
SG C:CYS51 2.3 29.4 1.0
FE3 C:SF4101 3.1 46.0 1.0
FE4 C:SF4101 3.1 41.5 1.0
FE1 C:SF4101 3.1 51.7 1.0
N C:CYS51 3.2 25.6 1.0
CB C:CYS51 3.5 20.7 1.0
N C:LYS52 3.5 22.2 1.0
CA C:CYS51 3.7 22.3 1.0
S2 C:SF4101 3.8 33.2 1.0
CD C:PRO22 3.9 33.3 1.0
C C:CYS51 3.9 21.4 1.0
CG2 C:VAL49 4.0 29.3 1.0
N C:GLY50 4.1 23.9 1.0
C C:GLY50 4.1 26.0 1.0
N C:ARG53 4.2 29.9 1.0
CG C:PRO22 4.4 28.8 1.0
CA C:GLY50 4.5 19.4 1.0
CA C:LYS52 4.5 23.7 1.0
N C:VAL49 4.9 23.6 1.0
OG1 C:THR23 4.9 38.9 1.0
C C:LYS52 4.9 26.8 1.0
CB C:ARG53 4.9 23.6 1.0
O C:CYS51 5.0 33.9 1.0
SG C:CYS48 5.0 44.4 1.0

Iron binding site 7 out of 12 in 7yca

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Iron binding site 7 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:46.0
occ:1.00
 FE3 C:SF4101 0.0 46.0 1.0
S2 C:SF4101 2.2 33.2 1.0
S1 C:SF4101 2.2 30.1 1.0
S4 C:SF4101 2.2 37.4 1.0
SG C:CYS21 2.4 36.2 1.0
CB C:CYS21 3.0 31.2 1.0
FE2 C:SF4101 3.1 48.4 1.0
FE4 C:SF4101 3.1 41.5 1.0
FE1 C:SF4101 3.1 51.7 1.0
CA C:CYS21 3.5 30.1 1.0
S3 C:SF4101 3.8 36.3 1.0
OG1 C:THR23 3.9 38.9 1.0
CD C:PRO22 4.0 33.3 1.0
CB C:VAL25 4.1 32.1 1.0
CG2 C:VAL25 4.2 36.5 1.0
C C:CYS21 4.3 31.2 1.0
N C:PRO22 4.3 31.8 1.0
CD1 C:LEU26 4.7 36.2 1.0
N C:CYS21 4.7 34.5 1.0
N C:VAL25 4.8 37.3 1.0
N C:THR23 4.8 35.3 1.0
CG C:LEU26 4.8 33.4 1.0
SG C:CYS51 4.9 29.4 1.0
CG1 C:VAL25 4.9 37.4 1.0
SG C:CYS54 5.0 30.9 1.0

Iron binding site 8 out of 12 in 7yca

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Iron binding site 8 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:41.5
occ:1.00
 FE4 C:SF4101 0.0 41.5 1.0
S3 C:SF4101 2.2 36.3 1.0
S2 C:SF4101 2.2 33.2 1.0
S1 C:SF4101 2.2 30.1 1.0
SG C:CYS48 2.3 44.4 1.0
CB C:CYS48 3.1 29.4 1.0
FE1 C:SF4101 3.1 51.7 1.0
FE3 C:SF4101 3.1 46.0 1.0
FE2 C:SF4101 3.1 48.4 1.0
CA C:CYS48 3.4 26.6 1.0
S4 C:SF4101 3.8 37.4 1.0
N C:GLY50 3.9 23.9 1.0
C C:CYS48 4.0 30.0 1.0
N C:VAL49 4.0 23.6 1.0
CG2 C:VAL5 4.2 35.7 1.0
CA C:GLY50 4.4 19.4 1.0
CG2 C:VAL25 4.4 36.5 1.0
CB C:VAL25 4.6 32.1 1.0
CG2 C:VAL67 4.6 30.7 1.0
CG1 C:VAL25 4.6 37.4 1.0
N C:CYS48 4.7 33.0 1.0
OG1 C:THR23 4.8 38.9 1.0
CG1 C:VAL67 4.8 29.3 1.0
N C:CYS51 4.8 25.6 1.0
O C:CYS48 4.9 42.2 1.0
C C:VAL49 4.9 28.3 1.0
C C:GLY50 5.0 26.0 1.0

Iron binding site 9 out of 12 in 7yca

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Iron binding site 9 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe102

b:53.4
occ:1.00
 FE1 C:SF4102 0.0 53.4 1.0
S2 C:SF4102 2.2 26.2 1.0
S3 C:SF4102 2.2 38.1 1.0
S4 C:SF4102 2.2 42.5 1.0
SG C:CYS58 2.4 39.6 1.0
CB C:CYS58 3.1 31.0 1.0
FE2 C:SF4102 3.1 47.4 1.0
FE4 C:SF4102 3.1 56.4 1.0
FE3 C:SF4102 3.1 54.1 1.0
CA C:CYS58 3.5 31.7 1.0
S1 C:SF4102 3.8 39.1 1.0
CD C:PRO59 4.0 33.2 1.0
CB C:SER64 4.1 36.6 1.0
CG2 C:THR60 4.2 37.5 1.0
CG1 C:VAL65 4.3 31.9 1.0
C C:CYS58 4.3 30.8 1.0
N C:PRO59 4.4 23.4 1.0
SG C:CYS14 4.5 36.8 1.0
OG C:SER64 4.6 43.1 1.0
N C:SER64 4.7 35.5 1.0
N C:VAL65 4.7 27.7 1.0
N C:CYS58 4.7 29.1 1.0
CB C:CYS17 4.8 29.2 1.0
CA C:SER64 4.8 33.1 1.0
CB C:VAL65 5.0 22.4 1.0
C C:SER64 5.0 33.4 1.0

Iron binding site 10 out of 12 in 7yca

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Iron binding site 10 out of 12 in the Cryo-Em Structure of the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri


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 the Psi-Lhci-Lhcp Supercomplex From Ostreococcus Tauri within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe102

b:47.4
occ:1.00
 FE2 C:SF4102 0.0 47.4 1.0
S4 C:SF4102 2.2 42.5 1.0
S1 C:SF4102 2.2 39.1 1.0
S3 C:SF4102 2.2 38.1 1.0
SG C:CYS17 2.3 46.1 1.0
CB C:CYS17 2.7 29.2 1.0
FE4 C:SF4102 3.1 56.4 1.0
FE1 C:SF4102 3.1 53.4 1.0
FE3 C:SF4102 3.1 54.1 1.0
N C:CYS17 3.5 30.5 1.0
CA C:CYS17 3.7 27.4 1.0
S2 C:SF4102 3.8 26.2 1.0
CB C:ALA40 4.2 35.7 1.0
N C:GLN16 4.5 35.6 1.0
SG C:CYS11 4.6 44.1 1.0
N C:VAL18 4.6 33.5 1.0
C C:CYS17 4.7 32.1 1.0
C C:GLN16 4.7 39.3 1.0
CG1 C:VAL65 4.7 31.9 1.0
SG C:CYS14 4.7 36.8 1.0
N C:THR15 4.8 35.6 1.0
C C:THR15 4.8 34.6 1.0
CA C:THR15 4.9 37.0 1.0

Reference:

A.Ishii, J.Shan, X.Sheng, E.Kim, A.Watanabe, M.Yokono, C.Noda, C.Song, K.Murata, Z.Liu, J.Minagawa. The Photosystem I Supercomplex From A Primordial Green Alga Ostreococcus Tauri Harbors Three Light-Harvesting Complex Trimers. Elife V. 12 2023.
ISSN: ESSN 2050-084X
PubMed: 36951548
DOI: 10.7554/ELIFE.84488
Page generated: Fri Aug 9 12:15:52 2024

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