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Iron in PDB 1fe1: Crystal Structure Photosystem II

Protein crystallography data

The structure of Crystal Structure Photosystem II, PDB code: 1fe1 was solved by A.Zouni, H.-T.Witt, J.Kern, P.Fromme, N.Krauss, W.Saenger, P.Orth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 130.010, 226.720, 308.290, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1fe1:

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

Cadmium (Cd) 2 atoms
Magnesium (Mg) 64 atoms
Manganese (Mn) 8 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure Photosystem II (pdb code 1fe1). 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 Photosystem II, PDB code: 1fe1:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 1fe1

Go back to Iron Binding Sites List in 1fe1
Iron binding site 1 out of 6 in the Crystal Structure 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 Photosystem II within 5.0Å range:

Iron binding site 2 out of 6 in 1fe1

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Iron binding site 2 out of 6 in the Crystal Structure 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 Photosystem II within 5.0Å range:

Iron binding site 3 out of 6 in 1fe1

Go back to Iron Binding Sites List in 1fe1
Iron binding site 3 out of 6 in the Crystal Structure 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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe31

b:45.9
occ:1.00
FE F:HEM31 0.0 45.9 1.0
ND F:HEM31 2.0 45.1 1.0
NA F:HEM31 2.1 44.6 1.0
NC F:HEM31 2.1 43.8 1.0
NB F:HEM31 2.1 46.8 1.0
C4A F:HEM31 3.0 44.7 1.0
C4D F:HEM31 3.0 45.2 1.0
C1D F:HEM31 3.1 46.2 1.0
C1C F:HEM31 3.1 42.9 1.0
C4C F:HEM31 3.1 43.3 1.0
C1B F:HEM31 3.1 45.2 1.0
C1A F:HEM31 3.1 46.4 1.0
C4B F:HEM31 3.1 45.0 1.0
CHC F:HEM31 3.4 44.6 1.0
CHB F:HEM31 3.4 44.7 1.0
CHD F:HEM31 3.4 44.0 1.0
CHA F:HEM31 3.4 45.6 1.0
C2D F:HEM31 4.2 47.3 1.0
C3D F:HEM31 4.3 45.8 1.0
C2B F:HEM31 4.3 45.0 1.0
C3B F:HEM31 4.3 45.6 1.0
C3A F:HEM31 4.4 45.4 1.0
C2C F:HEM31 4.4 40.4 1.0
C2A F:HEM31 4.4 46.1 1.0
C3C F:HEM31 4.4 40.1 1.0

Iron binding site 4 out of 6 in 1fe1

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Iron binding site 4 out of 6 in the Crystal Structure 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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Fe88

b:45.9
occ:1.00
FE I:HEM88 0.0 45.9 1.0
ND I:HEM88 2.0 45.1 1.0
NA I:HEM88 2.1 44.6 1.0
NC I:HEM88 2.1 43.8 1.0
NB I:HEM88 2.1 46.8 1.0
C4A I:HEM88 3.0 44.7 1.0
C4D I:HEM88 3.0 45.2 1.0
C1D I:HEM88 3.1 46.2 1.0
C1C I:HEM88 3.1 42.9 1.0
C4C I:HEM88 3.1 43.3 1.0
C1B I:HEM88 3.1 45.2 1.0
C1A I:HEM88 3.1 46.4 1.0
C4B I:HEM88 3.1 45.0 1.0
CHC I:HEM88 3.4 44.6 1.0
CHB I:HEM88 3.4 44.7 1.0
CHD I:HEM88 3.4 44.0 1.0
CHA I:HEM88 3.4 45.6 1.0
C2D I:HEM88 4.2 47.3 1.0
C3D I:HEM88 4.3 45.8 1.0
C2B I:HEM88 4.3 45.0 1.0
C3B I:HEM88 4.3 45.6 1.0
C3A I:HEM88 4.4 45.4 1.0
C2C I:HEM88 4.4 40.4 1.0
C2A I:HEM88 4.4 46.1 1.0
C3C I:HEM88 4.4 40.1 1.0

Iron binding site 5 out of 6 in 1fe1

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Iron binding site 5 out of 6 in the Crystal Structure 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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Fe58

b:45.9
occ:1.00
FE O:HEM58 0.0 45.9 1.0
ND O:HEM58 2.0 45.1 1.0
NA O:HEM58 2.1 44.6 1.0
NC O:HEM58 2.1 43.8 1.0
NB O:HEM58 2.1 46.8 1.0
C4A O:HEM58 3.0 44.7 1.0
C4D O:HEM58 3.0 45.2 1.0
C1D O:HEM58 3.1 46.2 1.0
C1C O:HEM58 3.1 42.9 1.0
C4C O:HEM58 3.1 43.3 1.0
C1B O:HEM58 3.1 45.2 1.0
C1A O:HEM58 3.1 46.4 1.0
C4B O:HEM58 3.1 45.0 1.0
CHC O:HEM58 3.4 44.6 1.0
CHB O:HEM58 3.4 44.7 1.0
CHD O:HEM58 3.4 44.0 1.0
CHA O:HEM58 3.4 45.6 1.0
C2D O:HEM58 4.2 47.3 1.0
C3D O:HEM58 4.3 45.8 1.0
C2B O:HEM58 4.3 45.0 1.0
C3B O:HEM58 4.3 45.6 1.0
C3A O:HEM58 4.4 45.4 1.0
C2C O:HEM58 4.4 40.4 1.0
C2A O:HEM58 4.4 46.1 1.0
C3C O:HEM58 4.4 40.1 1.0

Iron binding site 6 out of 6 in 1fe1

Go back to Iron Binding Sites List in 1fe1
Iron binding site 6 out of 6 in the Crystal Structure 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 Photosystem II within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Fe88

b:45.9
occ:1.00
FE R:HEM88 0.0 45.9 1.0
ND R:HEM88 2.0 45.1 1.0
NA R:HEM88 2.1 44.6 1.0
NC R:HEM88 2.1 43.8 1.0
NB R:HEM88 2.1 46.8 1.0
C4A R:HEM88 3.0 44.7 1.0
C4D R:HEM88 3.0 45.2 1.0
C1D R:HEM88 3.1 46.2 1.0
C1C R:HEM88 3.1 42.9 1.0
C4C R:HEM88 3.1 43.3 1.0
C1B R:HEM88 3.1 45.2 1.0
C1A R:HEM88 3.1 46.4 1.0
C4B R:HEM88 3.1 45.0 1.0
CHC R:HEM88 3.4 44.6 1.0
CHB R:HEM88 3.4 44.7 1.0
CHD R:HEM88 3.4 44.0 1.0
CHA R:HEM88 3.4 45.6 1.0
C2D R:HEM88 4.2 47.3 1.0
C3D R:HEM88 4.3 45.8 1.0
C2B R:HEM88 4.3 45.0 1.0
C3B R:HEM88 4.3 45.6 1.0
C3A R:HEM88 4.4 45.4 1.0
C2C R:HEM88 4.4 40.4 1.0
C2A R:HEM88 4.4 46.1 1.0
C3C R:HEM88 4.4 40.1 1.0

Reference:

A.Zouni, H.T.Witt, J.Kern, P.Fromme, N.Krauss, W.Saenger, P.Orth. Crystal Structure of Photosystem II From Synechococcus Elongatus at 3.8 A Resolution. Nature V. 409 739 2001.
ISSN: ISSN 0028-0836
PubMed: 11217865
DOI: 10.1038/35055589
Page generated: Sun Dec 13 14:13:37 2020

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