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Iron in PDB 1izl: Crystal Structure of Photosystem II

Protein crystallography data

The structure of Crystal Structure of Photosystem II, PDB code: 1izl was solved by N.Kamiya, J.-R.Shen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 3.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 129.377, 225.192, 308.672, 90.00, 90.00, 90.00
R / Rfree (%) 53 / n/a

Other elements in 1izl:

The structure of Crystal Structure of Photosystem II also contains other interesting chemical elements:

Magnesium (Mg) 72 atoms
Manganese (Mn) 8 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Photosystem II (pdb code 1izl). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Crystal Structure of Photosystem II, PDB code: 1izl:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 1izl

Go back to Iron Binding Sites List in 1izl
Iron binding site 1 out of 6 in the Crystal Structure of Photosystem II


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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe353

b:46.9
occ:1.00
CE1 D:HIS214 3.5 46.9 1.0
ND1 D:HIS214 4.3 46.9 1.0
NE2 D:HIS214 4.4 46.9 1.0

Iron binding site 2 out of 6 in 1izl

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Iron binding site 2 out of 6 in the Crystal Structure of Photosystem II


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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe84

b:46.9
occ:1.00
FE E:HEM84 0.0 46.9 1.0
ND E:HEM84 2.0 46.9 1.0
NA E:HEM84 2.0 46.9 1.0
NC E:HEM84 2.1 46.9 1.0
NB E:HEM84 2.1 46.9 1.0
C4D E:HEM84 3.0 46.9 1.0
C4A E:HEM84 3.0 46.9 1.0
C1D E:HEM84 3.0 46.9 1.0
C1A E:HEM84 3.1 46.9 1.0
C1B E:HEM84 3.1 46.9 1.0
C1C E:HEM84 3.1 46.9 1.0
C4C E:HEM84 3.1 46.9 1.0
C4B E:HEM84 3.2 46.9 1.0
CHA E:HEM84 3.4 46.9 1.0
CHB E:HEM84 3.4 46.9 1.0
CHD E:HEM84 3.4 46.9 1.0
CHC E:HEM84 3.5 46.9 1.0
C2D E:HEM84 4.2 46.9 1.0
C3D E:HEM84 4.3 46.9 1.0
C3A E:HEM84 4.3 46.9 1.0
C2B E:HEM84 4.3 46.9 1.0
C2A E:HEM84 4.4 46.9 1.0
C3B E:HEM84 4.4 46.9 1.0
C2C E:HEM84 4.5 46.9 1.0
C3C E:HEM84 4.5 46.9 1.0

Iron binding site 3 out of 6 in 1izl

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Iron binding site 3 out of 6 in the Crystal Structure of Photosystem II


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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
V:Fe138

b:46.9
occ:1.00
FE V:HEM138 0.0 46.9 1.0
ND V:HEM138 2.0 46.9 1.0
NA V:HEM138 2.0 46.9 1.0
NC V:HEM138 2.1 46.9 1.0
NB V:HEM138 2.1 46.9 1.0
NE2 V:HIS92 2.6 46.9 1.0
NE2 V:HIS41 2.8 46.9 1.0
C4D V:HEM138 3.0 46.9 1.0
C4A V:HEM138 3.0 46.9 1.0
C1D V:HEM138 3.0 46.9 1.0
C1A V:HEM138 3.1 46.9 1.0
CE1 V:HIS92 3.1 46.9 1.0
C1B V:HEM138 3.1 46.9 1.0
C1C V:HEM138 3.1 46.9 1.0
C4C V:HEM138 3.1 46.9 1.0
C4B V:HEM138 3.2 46.9 1.0
CHA V:HEM138 3.4 46.9 1.0
CHB V:HEM138 3.4 46.9 1.0
CD2 V:HIS92 3.4 46.9 1.0
CHD V:HEM138 3.4 46.9 1.0
CHC V:HEM138 3.5 46.9 1.0
CE1 V:HIS41 3.5 46.9 1.0
CD2 V:HIS41 3.9 46.9 1.0
ND1 V:HIS92 4.0 46.9 1.0
C2D V:HEM138 4.2 46.9 1.0
CG V:HIS92 4.2 46.9 1.0
C3D V:HEM138 4.3 46.9 1.0
C3A V:HEM138 4.3 46.9 1.0
C2B V:HEM138 4.3 46.9 1.0
C2A V:HEM138 4.4 46.9 1.0
C3B V:HEM138 4.4 46.9 1.0
C2C V:HEM138 4.5 46.9 1.0
C3C V:HEM138 4.5 46.9 1.0
ND1 V:HIS41 4.7 46.9 1.0
CG V:HIS41 4.9 46.9 1.0

Iron binding site 4 out of 6 in 1izl

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Iron binding site 4 out of 6 in the Crystal Structure of Photosystem II


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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe353

b:46.9
occ:1.00
CE1 N:HIS214 3.5 46.9 1.0
ND1 N:HIS214 4.3 46.9 1.0
NE2 N:HIS214 4.4 46.9 1.0

Iron binding site 5 out of 6 in 1izl

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Iron binding site 5 out of 6 in the Crystal Structure of Photosystem II


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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe92

b:46.9
occ:1.00
FE P:HEM92 0.0 46.9 1.0
ND P:HEM92 2.0 46.9 1.0
NA P:HEM92 2.0 46.9 1.0
NC P:HEM92 2.1 46.9 1.0
NB P:HEM92 2.1 46.9 1.0
C4D P:HEM92 3.0 46.9 1.0
C4A P:HEM92 3.0 46.9 1.0
C1D P:HEM92 3.0 46.9 1.0
C1A P:HEM92 3.1 46.9 1.0
C1B P:HEM92 3.1 46.9 1.0
C1C P:HEM92 3.1 46.9 1.0
C4C P:HEM92 3.1 46.9 1.0
C4B P:HEM92 3.2 46.9 1.0
CHA P:HEM92 3.4 46.9 1.0
CHB P:HEM92 3.4 46.9 1.0
CHD P:HEM92 3.4 46.9 1.0
CHC P:HEM92 3.5 46.9 1.0
C2D P:HEM92 4.2 46.9 1.0
C3D P:HEM92 4.3 46.9 1.0
C3A P:HEM92 4.3 46.9 1.0
C2B P:HEM92 4.3 46.9 1.0
C2A P:HEM92 4.4 46.9 1.0
C3B P:HEM92 4.4 46.9 1.0
C2C P:HEM92 4.5 46.9 1.0
C3C P:HEM92 4.5 46.9 1.0

Iron binding site 6 out of 6 in 1izl

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Iron binding site 6 out of 6 in the Crystal Structure of Photosystem II


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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Fe138

b:46.9
occ:1.00
FE 0:HEM138 0.0 46.9 1.0
ND 0:HEM138 2.0 46.9 1.0
NA 0:HEM138 2.0 46.9 1.0
NC 0:HEM138 2.1 46.9 1.0
NB 0:HEM138 2.1 46.9 1.0
NE2 0:HIS92 2.6 46.9 1.0
NE2 0:HIS41 2.8 46.9 1.0
C4D 0:HEM138 3.0 46.9 1.0
C4A 0:HEM138 3.0 46.9 1.0
C1D 0:HEM138 3.0 46.9 1.0
C1A 0:HEM138 3.1 46.9 1.0
CE1 0:HIS92 3.1 46.9 1.0
C1B 0:HEM138 3.1 46.9 1.0
C1C 0:HEM138 3.1 46.9 1.0
C4C 0:HEM138 3.1 46.9 1.0
C4B 0:HEM138 3.2 46.9 1.0
CHB 0:HEM138 3.4 46.9 1.0
CHA 0:HEM138 3.4 46.9 1.0
CE1 0:HIS41 3.4 46.9 1.0
CD2 0:HIS92 3.4 46.9 1.0
CHD 0:HEM138 3.4 46.9 1.0
CHC 0:HEM138 3.5 46.9 1.0
CD2 0:HIS41 3.9 46.9 1.0
ND1 0:HIS92 4.0 46.9 1.0
C2D 0:HEM138 4.2 46.9 1.0
CG 0:HIS92 4.2 46.9 1.0
C3D 0:HEM138 4.3 46.9 1.0
C3A 0:HEM138 4.3 46.9 1.0
C2B 0:HEM138 4.3 46.9 1.0
C2A 0:HEM138 4.4 46.9 1.0
C3B 0:HEM138 4.4 46.9 1.0
C2C 0:HEM138 4.5 46.9 1.0
C3C 0:HEM138 4.5 46.9 1.0
ND1 0:HIS41 4.6 46.9 1.0
CG 0:HIS41 4.9 46.9 1.0

Reference:

N.Kamiya, J.-R.Shen. Crystal Structure of Oxygen-Evolving Photosystem II From Thermosynechococcus Vulcanus at 3.7-A Resolution Proc.Natl.Acad.Sci.Usa V. 100 98 2003.
ISSN: ISSN 0027-8424
PubMed: 12518057
DOI: 10.1073/PNAS.0135651100
Page generated: Sat Aug 3 08:18:22 2024

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