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Iron in PDB 6jo5: Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I

Enzymatic activity of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I

All present enzymatic activity of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I:
1.97.1.12;

Other elements in 6jo5:

The structure of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I also contains other interesting chemical elements:

Magnesium (Mg) 239 atoms

Iron Binding Sites:

Pages:

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

Binding sites:

The binding sites of Iron atom in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I (pdb code 6jo5). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I, PDB code: 6jo5:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 12 in 6jo5

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Iron binding site 1 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:9.0
occ:1.00
 FE1 A:SF4853 0.0 9.0 1.0
S4 A:SF4853 2.1 9.0 1.0
S3 A:SF4853 2.1 9.0 1.0
S2 A:SF4853 2.1 9.0 1.0
SG B:CYS569 2.2 8.0 1.0
FE4 A:SF4853 3.0 9.0 1.0
FE3 A:SF4853 3.0 9.0 1.0
FE2 A:SF4853 3.0 9.0 1.0
CB B:CYS569 3.6 8.0 1.0
S1 A:SF4853 3.7 9.0 1.0
CZ3 B:TRP668 3.7 8.0 1.0
CD1 A:ILE720 4.1 7.7 1.0
CA B:CYS569 4.2 8.0 1.0
CE3 B:TRP668 4.4 8.0 1.0
CG2 A:ILE720 4.5 7.7 1.0
CH2 B:TRP668 4.6 8.0 1.0
N B:CYS569 4.7 8.0 1.0
NH2 A:ARG724 4.8 5.7 1.0
CG1 A:ILE720 4.8 7.7 1.0
SG A:CYS584 5.0 8.7 1.0

Iron binding site 2 out of 12 in 6jo5

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Iron binding site 2 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:9.0
occ:1.00
 FE2 A:SF4853 0.0 9.0 1.0
S1 A:SF4853 2.1 9.0 1.0
S3 A:SF4853 2.1 9.0 1.0
S4 A:SF4853 2.1 9.0 1.0
SG A:CYS584 2.3 8.7 1.0
FE1 A:SF4853 3.0 9.0 1.0
FE3 A:SF4853 3.0 9.0 1.0
FE4 A:SF4853 3.0 9.0 1.0
CB A:CYS584 3.0 8.7 1.0
CA A:CYS584 3.7 8.7 1.0
S2 A:SF4853 3.7 9.0 1.0
N A:CYS584 4.0 8.7 1.0
CD1 B:ILE703 4.0 7.0 1.0
CE3 B:TRP668 4.3 8.0 1.0
CZ3 B:TRP668 4.5 8.0 1.0
CB A:CYS575 4.6 7.2 1.0
SG A:CYS575 4.7 7.2 1.0
CG1 B:ILE703 4.8 7.0 1.0
C A:THR583 4.9 8.6 1.0
SG B:CYS560 4.9 6.9 1.0

Iron binding site 3 out of 12 in 6jo5

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Iron binding site 3 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:9.0
occ:1.00
 FE3 A:SF4853 0.0 9.0 1.0
S2 A:SF4853 2.1 9.0 1.0
S1 A:SF4853 2.1 9.0 1.0
S4 A:SF4853 2.1 9.0 1.0
SG A:CYS575 2.2 7.2 1.0
FE1 A:SF4853 3.0 9.0 1.0
FE4 A:SF4853 3.0 9.0 1.0
FE2 A:SF4853 3.0 9.0 1.0
CB A:CYS575 3.2 7.2 1.0
S3 A:SF4853 3.7 9.0 1.0
CA A:CYS575 4.5 7.2 1.0
N A:GLY577 4.5 8.4 1.0
N B:PRO563 4.6 9.7 1.0
CD1 A:ILE720 4.6 7.7 1.0
CD B:PRO563 4.6 9.7 1.0
CB B:PRO563 4.7 9.7 1.0
CA A:GLY577 4.7 8.4 1.0
C B:GLY562 4.7 8.7 1.0
N A:CYS575 4.8 7.2 1.0
SG B:CYS560 4.8 6.9 1.0
SG B:CYS569 4.8 8.0 1.0
CA B:PRO563 4.8 9.7 1.0
C A:GLY577 4.9 8.4 1.0
C A:PRO574 5.0 5.4 1.0

Iron binding site 4 out of 12 in 6jo5

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Iron binding site 4 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe853

b:9.0
occ:1.00
 FE4 A:SF4853 0.0 9.0 1.0
S2 A:SF4853 2.1 9.0 1.0
S3 A:SF4853 2.1 9.0 1.0
S1 A:SF4853 2.1 9.0 1.0
SG B:CYS560 2.2 6.9 1.0
CB B:CYS560 2.9 6.9 1.0
FE1 A:SF4853 3.0 9.0 1.0
FE3 A:SF4853 3.0 9.0 1.0
FE2 A:SF4853 3.0 9.0 1.0
S4 A:SF4853 3.7 9.0 1.0
CA B:CYS560 4.4 6.9 1.0
N B:GLY562 4.5 8.7 1.0
SG B:CYS569 4.6 8.0 1.0
CA B:GLY562 4.6 8.7 1.0
O B:THR568 4.6 7.2 1.0
CD A:PRO578 4.7 8.7 1.0
CD1 B:ILE703 4.7 7.0 1.0
CB A:PRO578 4.7 8.7 1.0
N A:PRO578 4.7 8.7 1.0
C B:GLY562 4.8 8.7 1.0
N B:CYS560 4.9 6.9 1.0
O B:GLY562 4.9 8.7 1.0
CA A:PRO578 5.0 8.7 1.0

Iron binding site 5 out of 12 in 6jo5

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Iron binding site 5 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:15.8
occ:1.00
 FE1 C:SF4101 0.0 15.8 1.0
S3 C:SF4101 2.1 15.8 1.0
S4 C:SF4101 2.1 15.8 1.0
S2 C:SF4101 2.1 15.8 1.0
SG C:CYS51 2.3 10.2 1.0
FE4 C:SF4101 3.0 15.8 1.0
FE3 C:SF4101 3.0 15.8 1.0
FE2 C:SF4101 3.0 15.8 1.0
N C:CYS51 3.4 10.2 1.0
CB C:CYS51 3.6 10.2 1.0
S1 C:SF4101 3.7 15.8 1.0
N C:LYS52 3.8 9.8 1.0
CD C:PRO22 3.9 12.8 1.0
CA C:CYS51 4.0 10.2 1.0
N C:GLY50 4.2 10.7 1.0
C C:CYS51 4.3 10.2 1.0
C C:GLY50 4.4 10.7 1.0
CG2 C:VAL49 4.4 15.8 1.0
SG C:CYS21 4.5 11.7 1.0
CG C:PRO22 4.5 12.8 1.0
N C:ARG53 4.5 9.2 1.0
CA C:GLY50 4.6 10.7 1.0
CD1 C:LEU23 4.7 14.6 1.0
SG C:CYS48 4.7 16.0 1.0
CA C:LYS52 4.8 9.8 1.0
N C:VAL49 4.9 15.8 1.0

Iron binding site 6 out of 12 in 6jo5

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Iron binding site 6 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:15.8
occ:1.00
 FE2 C:SF4101 0.0 15.8 1.0
SG C:CYS21 2.1 11.7 1.0
S3 C:SF4101 2.1 15.8 1.0
S4 C:SF4101 2.1 15.8 1.0
S1 C:SF4101 2.1 15.8 1.0
CB C:CYS21 2.8 11.7 1.0
FE3 C:SF4101 3.0 15.8 1.0
FE1 C:SF4101 3.0 15.8 1.0
FE4 C:SF4101 3.0 15.8 1.0
CG2 C:VAL25 3.2 15.3 1.0
CA C:CYS21 3.6 11.7 1.0
S2 C:SF4101 3.7 15.8 1.0
CD C:PRO22 4.3 12.8 1.0
CB C:VAL25 4.4 15.3 1.0
C C:CYS21 4.4 11.7 1.0
CG1 C:VAL25 4.5 15.3 1.0
N C:PRO22 4.6 12.8 1.0
CD1 C:LEU26 4.7 13.5 1.0
CG C:LEU26 4.7 13.5 1.0
N C:CYS21 4.7 11.7 1.0
SG C:CYS54 4.9 9.3 1.0
CB C:CYS54 5.0 9.3 1.0
SG C:CYS51 5.0 10.2 1.0

Iron binding site 7 out of 12 in 6jo5

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Iron binding site 7 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:15.8
occ:1.00
 FE3 C:SF4101 0.0 15.8 1.0
S1 C:SF4101 2.1 15.8 1.0
S2 C:SF4101 2.1 15.8 1.0
S4 C:SF4101 2.1 15.8 1.0
SG C:CYS54 2.3 9.3 1.0
FE1 C:SF4101 3.0 15.8 1.0
FE2 C:SF4101 3.0 15.8 1.0
FE4 C:SF4101 3.0 15.8 1.0
CB C:CYS54 3.2 9.3 1.0
N C:CYS54 3.5 9.3 1.0
S3 C:SF4101 3.7 15.8 1.0
CA C:CYS54 4.0 9.3 1.0
N C:ARG53 4.0 9.2 1.0
CA C:LYS52 4.1 9.8 1.0
N C:LYS52 4.1 9.8 1.0
CG2 C:VAL67 4.1 10.3 1.0
C C:LYS52 4.4 9.8 1.0
SG C:CYS51 4.5 10.2 1.0
C C:ARG53 4.7 9.2 1.0
CA C:ARG53 4.8 9.2 1.0
N C:GLU55 4.9 9.4 1.0
CB C:CYS21 5.0 11.7 1.0
C C:CYS54 5.0 9.3 1.0

Iron binding site 8 out of 12 in 6jo5

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Iron binding site 8 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe101

b:15.8
occ:1.00
 FE4 C:SF4101 0.0 15.8 1.0
S2 C:SF4101 2.1 15.8 1.0
S3 C:SF4101 2.1 15.8 1.0
S1 C:SF4101 2.1 15.8 1.0
SG C:CYS48 2.3 16.0 1.0
FE1 C:SF4101 3.0 15.8 1.0
FE2 C:SF4101 3.0 15.8 1.0
FE3 C:SF4101 3.0 15.8 1.0
CB C:CYS48 3.5 16.0 1.0
S4 C:SF4101 3.7 15.8 1.0
N C:GLY50 4.1 10.7 1.0
CG2 C:VAL25 4.1 15.3 1.0
CA C:CYS48 4.2 16.0 1.0
CG2 C:VAL5 4.3 14.5 1.0
CA C:GLY50 4.4 10.7 1.0
N C:VAL49 4.5 15.8 1.0
CG2 C:VAL67 4.5 10.3 1.0
C C:CYS48 4.7 16.0 1.0
CG1 C:VAL67 4.8 10.3 1.0
N C:CYS51 4.9 10.2 1.0
SG C:CYS54 4.9 9.3 1.0
SG C:CYS21 4.9 11.7 1.0

Iron binding site 9 out of 12 in 6jo5

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Iron binding site 9 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe102

b:19.9
occ:1.00
 FE1 C:SF4102 0.0 19.9 1.0
S2 C:SF4102 2.1 19.9 1.0
S4 C:SF4102 2.1 19.9 1.0
S3 C:SF4102 2.1 19.9 1.0
SG C:CYS58 2.5 11.9 1.0
FE4 C:SF4102 3.0 19.9 1.0
FE3 C:SF4102 3.0 19.9 1.0
FE2 C:SF4102 3.0 19.9 1.0
CB C:CYS58 3.4 11.9 1.0
S1 C:SF4102 3.7 19.9 1.0
CB C:SER64 3.9 11.8 1.0
CA C:CYS58 4.0 11.9 1.0
CD C:PRO59 4.1 14.7 1.0
OG C:SER64 4.5 11.8 1.0
CG1 C:VAL65 4.5 11.2 1.0
SG C:CYS14 4.6 16.5 1.0
N C:PRO59 4.7 14.7 1.0
CG2 C:THR60 4.8 14.5 1.0
CA C:SER64 4.8 11.8 1.0
C C:CYS58 4.8 11.9 1.0
OG1 C:THR60 4.8 14.5 1.0
N C:SER64 4.8 11.8 1.0
N C:VAL65 4.8 11.2 1.0
C C:SER64 4.9 11.8 1.0
CB C:CYS17 5.0 14.5 1.0

Iron binding site 10 out of 12 in 6jo5

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Iron binding site 10 out of 12 in the Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Structure of the Green Algal Photosystem I Supercomplex with Light- Harvesting Complex I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe102

b:19.9
occ:1.00
 FE2 C:SF4102 0.0 19.9 1.0
S1 C:SF4102 2.1 19.9 1.0
S4 C:SF4102 2.1 19.9 1.0
S3 C:SF4102 2.1 19.9 1.0
SG C:CYS17 2.2 14.5 1.0
FE3 C:SF4102 3.0 19.9 1.0
FE1 C:SF4102 3.0 19.9 1.0
CB C:CYS17 3.0 14.5 1.0
FE4 C:SF4102 3.0 19.9 1.0
S2 C:SF4102 3.7 19.9 1.0
N C:CYS17 3.9 14.5 1.0
CB C:ALA40 3.9 18.6 1.0
CA C:CYS17 4.1 14.5 1.0
CG1 C:VAL65 4.8 11.2 1.0
N C:GLN16 4.9 15.0 1.0
N C:VAL18 4.9 15.6 1.0
SG C:CYS11 4.9 16.9 1.0
C C:CYS17 5.0 14.5 1.0

Reference:

M.Suga, S.I.Ozawa, K.Yoshida-Motomura, F.Akita, N.Miyazaki, Y.Takahashi. Structure of the Green Algal Photosystem I Supercomplex with A Decameric Light-Harvesting Complex I. Nat.Plants V. 5 626 2019.
ISSN: ESSN 2055-0278
PubMed: 31182847
DOI: 10.1038/S41477-019-0438-4
Page generated: Tue Aug 6 23:31:01 2024

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