4FBY: fs X-ray diffraction of Photosystem II

Citation:
Abstract
Most of the dioxygen on earth is generated by the oxidation of water by photosystem II (PS II) using light from the sun. This light-driven, four-photon reaction is catalyzed by the Mn(4)CaO(5) cluster located at the lumenal side of PS II. Various X-ray studies have been carried out at cryogenic temperatures to understand the intermediate steps involved in the water oxidation mechanism. However, the necessity for collecting data at room temperature, especially for studying the transient steps during the O-O bond formation, requires the development of new methodologies. In this paper we report room temperature X-ray diffraction data of PS II microcrystals obtained using ultrashort (< 50 fs) 9 keV X-ray pulses from a hard X-ray free electron laser, namely the Linac Coherent Light Source. The results presented here demonstrate that the "probe before destroy" approach using an X-ray free electron laser works even for the highly-sensitive Mn(4)CaO(5) cluster in PS II at room temperature. We show that these data are comparable to those obtained in synchrotron radiation studies as seen by the similarities in the overall structure of the helices, the protein subunits and the location of the various cofactors. This work is, therefore, an important step toward future studies for resolving the structure of the Mn(4)CaO(5) cluster without any damage at room temperature, and of the reaction intermediates of PS II during O-O bond formation.
PDB ID: 4FBYDownload
MMDB ID: 100761
PDB Deposition Date: 2012/5/23
Updated in MMDB: 2017/12
Experimental Method:
x-ray diffraction
Resolution: 6.56  Å
Source Organism:
Similar Structures:
Biological Unit for 4FBY: 40-meric; determined by author
Molecular Components in 4FBY
Label Count Molecule
Proteins (40 molecules)
2
Photosystem Q(b) Protein 1(Gene symbol: psbA1)
Molecule annotation
2
Photosystem II Core Light Harvesting Protein(Gene symbol: psbB)
Molecule annotation
2
Photosystem II Cp43 Protein(Gene symbol: psbC)
Molecule annotation
2
Photosystem II D2 Protein(Gene symbol: psbD1)
Molecule annotation
2
Cytochrome B559 Subunit Alpha(Gene symbol: psbE)
Molecule annotation
2
Cytochrome B559 Subunit Beta(Gene symbol: psbF)
Molecule annotation
2
Photosystem II Reaction Center Protein H(Gene symbol: psbH)
Molecule annotation
2
Photosystem II Reaction Center Protein I(Gene symbol: psbI)
Molecule annotation
2
Photosystem II Reaction Center Protein J(Gene symbol: psbJ)
Molecule annotation
2
Photosystem II Reaction Center Protein K(Gene symbol: psbK)
Molecule annotation
2
Photosystem II Reaction Center Protein L(Gene symbol: psbL)
Molecule annotation
2
Photosystem II Reaction Center Protein M(Gene symbol: psbM)
Molecule annotation
2
Photosystem II Manganese-stabilizing Polypeptide(Gene symbol: psbO)
Molecule annotation
2
Photosystem II Reaction Center Protein T(Gene symbol: psbT)
Molecule annotation
2
Photosystem II 12 KDA Extrinsic Protein(Gene symbol: psbU)
Molecule annotation
2
Cytochrome C-550(Gene symbol: psbV)
Molecule annotation
2
Photosystem II Reaction Center Protein Ycf12(Gene symbol: ycf12)
Molecule annotation
2
Photosystem II Reaction Center Protein X(Gene symbol: psbX)
Molecule annotation
2
Photosystem II Reaction Center Protein Y
Molecule annotation
2
Photosystem II Reaction Center Protein Z(Gene symbol: psbZ)
Molecule annotation
Chemicals (182 molecules)
1
70
2
4
3
6
4
14
5
4
6
10
7
22
8
2
9
2
10
24
11
14
12
2
13
2
14
4
15
2
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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