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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-12335 | ||||||||||||
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Title | Structure of PSII-M | ||||||||||||
![]() | CryoEM Map of PSII-M | ||||||||||||
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![]() | Membrane Protein Biogenesis Assembly Factors Photosystem II / PHOTOSYNTHESIS | ||||||||||||
Function / homology | ![]() oxygen evolving activity / photosystem II stabilization / photosystem II / photosystem II reaction center / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosynthetic electron transport chain / response to herbicide / photosystem II / plasma membrane-derived thylakoid membrane / chlorophyll binding ...oxygen evolving activity / photosystem II stabilization / photosystem II / photosystem II reaction center / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosynthetic electron transport chain / response to herbicide / photosystem II / plasma membrane-derived thylakoid membrane / chlorophyll binding / photosynthesis, light reaction / electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity / phosphate ion binding / photosynthetic electron transport in photosystem II / photosynthesis / electron transfer activity / protein stabilization / iron ion binding / heme binding / metal ion binding Similarity search - Function | ||||||||||||
Biological species | ![]() ![]() | ||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.66 Å | ||||||||||||
![]() | Zabret J / Bohn S | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural insights into photosystem II assembly. Authors: Jure Zabret / Stefan Bohn / Sandra K Schuller / Oliver Arnolds / Madeline Möller / Jakob Meier-Credo / Pasqual Liauw / Aaron Chan / Emad Tajkhorshid / Julian D Langer / Raphael Stoll / Anja ...Authors: Jure Zabret / Stefan Bohn / Sandra K Schuller / Oliver Arnolds / Madeline Möller / Jakob Meier-Credo / Pasqual Liauw / Aaron Chan / Emad Tajkhorshid / Julian D Langer / Raphael Stoll / Anja Krieger-Liszkay / Benjamin D Engel / Till Rudack / Jan M Schuller / Marc M Nowaczyk / ![]() ![]() ![]() Abstract: Biogenesis of photosystem II (PSII), nature's water-splitting catalyst, is assisted by auxiliary proteins that form transient complexes with PSII components to facilitate stepwise assembly events. ...Biogenesis of photosystem II (PSII), nature's water-splitting catalyst, is assisted by auxiliary proteins that form transient complexes with PSII components to facilitate stepwise assembly events. Using cryo-electron microscopy, we solved the structure of such a PSII assembly intermediate from Thermosynechococcus elongatus at 2.94 Å resolution. It contains three assembly factors (Psb27, Psb28 and Psb34) and provides detailed insights into their molecular function. Binding of Psb28 induces large conformational changes at the PSII acceptor side, which distort the binding pocket of the mobile quinone (Q) and replace the bicarbonate ligand of non-haem iron with glutamate, a structural motif found in reaction centres of non-oxygenic photosynthetic bacteria. These results reveal mechanisms that protect PSII from damage during biogenesis until water splitting is activated. Our structure further demonstrates how the PSII active site is prepared for the incorporation of the MnCaO cluster, which performs the unique water-splitting reaction. | ||||||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 51.6 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 28 KB 28 KB | Display Display | ![]() |
Images | ![]() | 54.2 KB | ||
Filedesc metadata | ![]() | 7.5 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7nhoMC ![]() 7nhpC ![]() 7nhqC M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | CryoEM Map of PSII-M | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.09 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
+Entire : PSII-M
+Supramolecule #1: PSII-M
+Macromolecule #1: Photosystem II protein D1 1
+Macromolecule #2: Photosystem II CP47 reaction center protein
+Macromolecule #3: Photosystem II CP43 reaction center protein
+Macromolecule #4: Photosystem II D2 protein
+Macromolecule #5: Cytochrome b559 subunit alpha
+Macromolecule #6: Cytochrome b559 subunit beta
+Macromolecule #7: Photosystem II reaction center protein H
+Macromolecule #8: Photosystem II reaction center protein I
+Macromolecule #9: Photosystem II reaction center protein K
+Macromolecule #10: Photosystem II reaction center protein L
+Macromolecule #11: Photosystem II reaction center protein M
+Macromolecule #12: Photosystem II reaction center protein T
+Macromolecule #13: Photosystem II reaction center X protein
+Macromolecule #14: Photosystem II reaction center protein Ycf12
+Macromolecule #15: Photosystem II reaction center protein Z
+Macromolecule #16: FE (III) ION
+Macromolecule #17: MANGANESE (II) ION
+Macromolecule #18: CHLORIDE ION
+Macromolecule #19: PHEOPHYTIN A
+Macromolecule #20: CHLOROPHYLL A
+Macromolecule #21: BETA-CAROTENE
+Macromolecule #22: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
+Macromolecule #23: BICARBONATE ION
+Macromolecule #24: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
+Macromolecule #25: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,...
+Macromolecule #26: PROTOPORPHYRIN IX CONTAINING FE
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 6.5 |
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Vitrification | Cryogen name: ETHANE-PROPANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 55.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: NONE |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.66 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 166411 |
Initial angle assignment | Type: PROJECTION MATCHING |
Final angle assignment | Type: PROJECTION MATCHING |