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Iron in PDB 4rku: Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution

Enzymatic activity of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution

All present enzymatic activity of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution:
1.97.1.12;

Protein crystallography data

The structure of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution, PDB code: 4rku was solved by Y.Mazor, A.Borovikova, I.Greenberg, N.Nelson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.69 / 3.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 120.631, 189.168, 129.667, 90.00, 91.11, 90.00
R / Rfree (%) 25.8 / 29.3

Other elements in 4rku:

The structure of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution also contains other interesting chemical elements:

Magnesium (Mg) 158 atoms

Iron Binding Sites:

Pages:

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

Binding sites:

The binding sites of Iron atom in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution (pdb code 4rku). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution, PDB code: 4rku:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 12 in 4rku

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Iron binding site 1 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe8001

b:69.6
occ:1.00
 FE1 A:SF48001 0.0 69.6 1.0
S4 A:SF48001 2.3 60.4 1.0
S2 A:SF48001 2.3 50.5 1.0
S3 A:SF48001 2.3 75.8 1.0
FE3 A:SF48001 2.7 71.8 1.0
FE2 A:SF48001 2.7 64.8 1.0
FE4 A:SF48001 2.7 58.8 1.0
SG B:CYS559 2.8 63.8 1.0
CB B:CYS559 3.5 41.5 1.0
S1 A:SF48001 3.9 64.9 1.0
CA B:GLY561 4.5 38.5 1.0
N B:GLY561 4.5 40.6 1.0
C B:GLY561 4.6 44.7 1.0
SG B:CYS568 4.7 63.6 1.0
O B:GLY561 4.7 45.9 1.0
CD A:PRO584 4.8 34.0 1.0
N A:PRO584 4.9 34.2 1.0
CA B:CYS559 4.9 52.0 1.0
CA B:CYS568 5.0 36.8 1.0

Iron binding site 2 out of 12 in 4rku

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Iron binding site 2 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe8001

b:64.8
occ:1.00
 FE2 A:SF48001 0.0 64.8 1.0
S1 A:SF48001 2.3 64.9 1.0
S3 A:SF48001 2.3 75.8 1.0
S4 A:SF48001 2.3 60.4 1.0
FE4 A:SF48001 2.7 58.8 1.0
FE1 A:SF48001 2.7 69.6 1.0
FE3 A:SF48001 2.7 71.8 1.0
SG B:CYS568 2.9 63.6 1.0
CB B:CYS568 3.9 31.4 1.0
S2 A:SF48001 3.9 50.5 1.0
CD1 A:ILE727 3.9 47.5 1.0
CG2 A:ILE727 4.1 50.4 1.0
CZ3 B:TRP667 4.2 54.4 1.0
CA B:CYS568 4.5 36.8 1.0
SG A:CYS581 4.7 52.5 1.0
CG1 A:ILE727 4.8 50.7 1.0
NH2 A:ARG731 4.8 61.4 1.0
CE3 B:TRP667 4.8 57.0 1.0
N B:CYS568 4.8 44.8 1.0

Iron binding site 3 out of 12 in 4rku

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Iron binding site 3 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe8001

b:71.8
occ:1.00
 FE3 A:SF48001 0.0 71.8 1.0
S4 A:SF48001 2.3 60.4 1.0
S2 A:SF48001 2.3 50.5 1.0
S1 A:SF48001 2.3 64.9 1.0
FE1 A:SF48001 2.7 69.6 1.0
FE2 A:SF48001 2.7 64.8 1.0
FE4 A:SF48001 2.7 58.8 1.0
SG A:CYS581 2.8 52.5 1.0
CB A:CYS581 3.1 35.2 1.0
S3 A:SF48001 3.9 75.8 1.0
SG A:CYS590 4.4 55.3 1.0
N A:GLY583 4.4 42.6 1.0
C A:GLY583 4.4 40.9 1.0
O A:GLY583 4.5 42.9 1.0
CA A:GLY583 4.5 35.1 1.0
CA A:CYS581 4.6 45.9 1.0
CA A:CYS590 4.8 46.0 1.0
CB A:CYS590 4.8 50.2 1.0
N A:PRO584 4.9 34.2 1.0
O A:THR589 4.9 50.1 1.0

Iron binding site 4 out of 12 in 4rku

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Iron binding site 4 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe8001

b:58.8
occ:1.00
 FE4 A:SF48001 0.0 58.8 1.0
S3 A:SF48001 2.3 75.8 1.0
S1 A:SF48001 2.3 64.9 1.0
S2 A:SF48001 2.3 50.5 1.0
FE2 A:SF48001 2.7 64.8 1.0
FE1 A:SF48001 2.7 69.6 1.0
FE3 A:SF48001 2.7 71.8 1.0
SG A:CYS590 2.9 55.3 1.0
CB A:CYS590 3.8 50.2 1.0
S4 A:SF48001 3.9 60.4 1.0
CD1 B:ILE702 4.1 33.8 1.0
CE3 B:TRP667 4.3 57.0 1.0
CZ3 B:TRP667 4.4 54.4 1.0
CG2 B:ILE702 4.6 31.4 1.0
CA A:CYS590 4.7 46.0 1.0
SG B:CYS559 4.7 63.8 1.0
CG1 B:ILE702 4.8 33.6 1.0

Iron binding site 5 out of 12 in 4rku

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Iron binding site 5 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe8002

b:68.7
occ:1.00
 FE1 C:SF48002 0.0 68.7 1.0
S3 C:SF48002 2.3 74.1 1.0
S2 C:SF48002 2.3 61.5 1.0
S4 C:SF48002 2.3 53.9 1.0
FE4 C:SF48002 2.7 92.3 1.0
FE2 C:SF48002 2.7 58.2 1.0
FE3 C:SF48002 2.7 66.0 1.0
SG C:CYS21 2.9 64.0 1.0
CB C:CYS21 3.3 65.5 1.0
S1 C:SF48002 3.9 79.9 1.0
CG2 C:VAL25 3.9 41.5 1.0
CB C:VAL25 3.9 40.8 1.0
CA C:CYS21 4.0 70.9 1.0
OG1 C:THR23 4.4 57.6 1.0
CD C:PRO22 4.5 74.9 1.0
CD1 C:LEU26 4.6 40.7 1.0
CG1 C:VAL25 4.8 40.2 1.0
N C:VAL25 4.8 54.5 1.0
C C:CYS21 4.9 67.9 1.0
N C:PRO22 5.0 73.3 1.0
CA C:VAL25 5.0 52.7 1.0
N C:CYS21 5.0 75.5 1.0
CG C:LEU26 5.0 62.2 1.0

Iron binding site 6 out of 12 in 4rku

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Iron binding site 6 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe8002

b:58.2
occ:1.00
 FE2 C:SF48002 0.0 58.2 1.0
S4 C:SF48002 2.3 53.9 1.0
S1 C:SF48002 2.3 79.9 1.0
S3 C:SF48002 2.3 74.1 1.0
FE3 C:SF48002 2.7 66.0 1.0
FE1 C:SF48002 2.7 68.7 1.0
FE4 C:SF48002 2.8 92.3 1.0
SG C:CYS54 2.9 40.5 1.0
CB C:CYS54 3.3 61.9 1.0
N C:CYS54 3.9 66.4 1.0
S2 C:SF48002 3.9 61.5 1.0
CG2 C:VAL67 4.0 40.4 1.0
CA C:CYS54 4.2 66.5 1.0
N C:LYS52 4.3 67.2 1.0
CA C:LYS52 4.4 57.2 1.0
N C:ARG53 4.4 37.6 1.0
C C:LYS52 4.7 50.0 1.0
CD1 C:LEU26 4.7 40.7 1.0

Iron binding site 7 out of 12 in 4rku

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Iron binding site 7 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe8002

b:66.0
occ:1.00
 FE3 C:SF48002 0.0 66.0 1.0
S1 C:SF48002 2.3 79.9 1.0
S4 C:SF48002 2.3 53.9 1.0
S2 C:SF48002 2.3 61.5 1.0
FE4 C:SF48002 2.7 92.3 1.0
FE2 C:SF48002 2.7 58.2 1.0
FE1 C:SF48002 2.7 68.7 1.0
SG C:CYS51 2.9 41.2 1.0
N C:CYS51 3.5 51.6 1.0
N C:LYS52 3.9 67.2 1.0
S3 C:SF48002 3.9 74.1 1.0
CB C:CYS51 4.1 76.9 1.0
CG2 C:VAL49 4.1 50.2 1.0
N C:GLY50 4.1 52.6 1.0
CA C:CYS51 4.2 62.1 1.0
N C:ARG53 4.4 37.6 1.0
C C:CYS51 4.4 61.9 1.0
C C:GLY50 4.4 45.4 1.0
CD C:PRO22 4.5 74.9 1.0
CA C:GLY50 4.5 47.5 1.0
CA C:LYS52 4.7 57.2 1.0
N C:VAL49 4.9 55.9 1.0
SG C:CYS48 5.0 56.4 1.0
CB C:ARG53 5.0 39.0 1.0

Iron binding site 8 out of 12 in 4rku

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Iron binding site 8 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe8002

b:92.3
occ:1.00
 FE4 C:SF48002 0.0 92.3 1.0
S2 C:SF48002 2.3 61.5 1.0
S3 C:SF48002 2.3 74.1 1.0
S1 C:SF48002 2.3 79.9 1.0
SG C:CYS48 2.7 56.4 1.0
FE3 C:SF48002 2.7 66.0 1.0
FE1 C:SF48002 2.7 68.7 1.0
FE2 C:SF48002 2.8 58.2 1.0
CB C:CYS48 3.8 55.5 1.0
S4 C:SF48002 3.9 53.9 1.0
N C:GLY50 4.0 52.6 1.0
CA C:CYS48 4.2 54.3 1.0
CA C:GLY50 4.3 47.5 1.0
N C:VAL49 4.4 55.9 1.0
CG2 C:VAL67 4.5 40.4 1.0
CG2 C:VAL25 4.5 41.5 1.0
CG2 C:VAL5 4.5 54.5 1.0
CB C:VAL25 4.6 40.8 1.0
C C:CYS48 4.7 59.3 1.0
CG1 C:VAL25 4.7 40.2 1.0
N C:CYS51 4.8 51.6 1.0
CG1 C:VAL67 4.9 44.2 1.0
C C:GLY50 5.0 45.4 1.0

Iron binding site 9 out of 12 in 4rku

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Iron binding site 9 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe8003

b:61.5
occ:1.00
 FE1 C:SF48003 0.0 61.5 1.0
S3 C:SF48003 2.3 55.2 1.0
S4 C:SF48003 2.3 92.9 1.0
S2 C:SF48003 2.3 72.6 1.0
FE2 C:SF48003 2.7 87.6 1.0
FE4 C:SF48003 2.7 53.9 1.0
FE3 C:SF48003 2.7 63.3 1.0
SG C:CYS14 2.9 67.1 1.0
N C:CYS14 3.5 76.0 1.0
CB C:CYS14 3.7 80.5 1.0
N C:THR15 3.8 81.3 1.0
S1 C:SF48003 3.9 89.7 1.0
CA C:CYS14 4.0 73.4 1.0
CD C:PRO59 4.1 63.1 1.0
C C:CYS14 4.2 80.5 1.0
N C:GLN16 4.3 92.5 1.0
C C:GLY13 4.6 64.4 1.0
N C:GLY13 4.6 59.1 1.0
CA C:GLY13 4.7 59.7 1.0
CA C:THR15 4.8 80.8 1.0
CG C:PRO59 4.8 69.0 1.0
N C:CYS17 4.9 88.6 1.0
CG1 C:ILE12 4.9 60.6 1.0

Iron binding site 10 out of 12 in 4rku

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Iron binding site 10 out of 12 in the Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Crystal Structure of Plant Photosystem I at 3 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe8003

b:87.6
occ:1.00
 FE2 C:SF48003 0.0 87.6 1.0
S4 C:SF48003 2.3 92.9 1.0
S3 C:SF48003 2.3 55.2 1.0
S1 C:SF48003 2.3 89.7 1.0
FE4 C:SF48003 2.7 53.9 1.0
FE1 C:SF48003 2.7 61.5 1.0
FE3 C:SF48003 2.7 63.3 1.0
SG C:CYS11 3.0 92.1 1.0
CB C:CYS11 3.2 58.7 1.0
N C:GLY13 3.8 59.1 1.0
S2 C:SF48003 3.9 72.6 1.0
CA C:CYS11 4.1 59.6 1.0
N C:ILE12 4.1 69.4 1.0
CA C:GLY13 4.2 59.7 1.0
CB C:ALA40 4.2 70.5 1.0
N C:ALA40 4.4 74.6 1.0
N C:CYS14 4.5 76.0 1.0
C C:CYS11 4.6 68.4 1.0
CB C:SER64 4.6 61.6 1.0
C C:GLY13 4.9 64.4 1.0
C C:ILE12 4.9 62.5 1.0
CA C:ALA40 4.9 80.0 1.0
OG C:SER64 5.0 67.7 1.0

Reference:

Y.Mazor, A.Borovikova, I.Greenberg, N.Nelson. Crystal Structure of Plant Photosystem I at 3.1 Angstrom Resolution To Be Published.
Page generated: Mon Aug 5 09:21:00 2024

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