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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Stacked compact Dunaliella PSII | |||||||||
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Function / homology | ![]() plastoglobule / photosynthesis, light harvesting in photosystem I / oxygen evolving activity / photosystem II stabilization / photosystem II / photosystem II reaction center / chloroplast envelope / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosystem I / photosynthetic electron transport chain ...plastoglobule / photosynthesis, light harvesting in photosystem I / oxygen evolving activity / photosystem II stabilization / photosystem II / photosystem II reaction center / chloroplast envelope / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosystem I / photosynthetic electron transport chain / response to herbicide / photosystem II / chlorophyll binding / electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity / phosphate ion binding / chloroplast thylakoid membrane / response to light stimulus / 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: 3.6 Å | |||||||||
![]() | Caspy I / Fadeeva M / Mazor Y / Nelson N | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of photosystem II reveals conformational flexibility of stacked and unstacked supercomplexes. Authors: Ido Caspy / Maria Fadeeva / Yuval Mazor / Nathan Nelson / ![]() ![]() Abstract: Photosystem II (PSII) generates an oxidant whose redox potential is high enough to enable water oxidation , a substrate so abundant that it assures a practically unlimited electron source for life on ...Photosystem II (PSII) generates an oxidant whose redox potential is high enough to enable water oxidation , a substrate so abundant that it assures a practically unlimited electron source for life on earth . Our knowledge on the mechanism of water photooxidation was greatly advanced by high-resolution structures of prokaryotic PSII . Here, we show high-resolution cryogenic electron microscopy (cryo-EM) structures of eukaryotic PSII from the green alga at two distinct conformations. The conformers are also present in stacked PSII, exhibiting flexibility that may be relevant to the grana formation in chloroplasts of the green lineage. CP29, one of PSII associated light-harvesting antennae, plays a major role in distinguishing the two conformations of the supercomplex. We also show that the stacked PSII dimer, a form suggested to support the organisation of thylakoid membranes , can appear in many different orientations providing a flexible stacking mechanism for the arrangement of grana stacks in thylakoids. Our findings provide a structural basis for the heterogenous nature of the eukaryotic PSII on multiple levels. | |||||||||
History |
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Structure visualization
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Downloads & links
-EMDB archive
Map data | ![]() | 393.1 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 42.6 KB 42.6 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 17.1 KB | Display | ![]() |
Images | ![]() | 99.3 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7pinMC ![]() 7pi0C ![]() 7pi5C ![]() 7piwC ![]() 7pnkC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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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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Voxel size | X=Y=Z: 0.96 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
+Entire : Dunaliella salina Photosystem II complex
+Supramolecule #1: Dunaliella salina Photosystem II complex
+Macromolecule #1: Photosystem II protein D1
+Macromolecule #2: Photosystem II CP47 reaction center protein
+Macromolecule #3: Photosystem II reaction center protein Ycf12
+Macromolecule #4: Photosystem II CP43 reaction center protein
+Macromolecule #5: Photosystem II D2 protein
+Macromolecule #6: Cytochrome b559 subunit alpha
+Macromolecule #7: Cytochrome b559 subunit beta
+Macromolecule #8: Photosystem II reaction center protein H
+Macromolecule #9: Photosystem II reaction center protein I
+Macromolecule #10: PsbJ
+Macromolecule #11: Photosystem II reaction center protein K
+Macromolecule #12: Photosystem II reaction center protein L
+Macromolecule #13: PsbM
+Macromolecule #14: PsbO
+Macromolecule #15: PsbP
+Macromolecule #16: Photosystem II reaction center protein T
+Macromolecule #17: PsbW
+Macromolecule #18: PsbX
+Macromolecule #19: Photosystem II reaction center protein Z
+Macromolecule #20: LHCII M3
+Macromolecule #21: Chlorophyll a-b binding protein, chloroplastic
+Macromolecule #22: CP29
+Macromolecule #23: CP26
+Macromolecule #24: LHCII M1
+Macromolecule #25: PsbU
+Macromolecule #26: CA-MN4-O5 CLUSTER
+Macromolecule #27: FE (II) ION
+Macromolecule #28: CHLORIDE ION
+Macromolecule #29: CHLOROPHYLL A
+Macromolecule #30: PHEOPHYTIN A
+Macromolecule #31: BETA-CAROTENE
+Macromolecule #32: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
+Macromolecule #33: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
+Macromolecule #34: SPHINGOSINE
+Macromolecule #35: SODIUM ION
+Macromolecule #36: (1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},...
+Macromolecule #37: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
+Macromolecule #38: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
+Macromolecule #39: DIACYL GLYCEROL
+Macromolecule #40: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
+Macromolecule #41: trimethyl-[(2~{R})-1-oxidanyl-1-oxidanylidene-4-[(2~{S})-2-[(1~{S...
+Macromolecule #42: BICARBONATE ION
+Macromolecule #43: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,...
+Macromolecule #44: PROTOPORPHYRIN IX CONTAINING FE
+Macromolecule #45: (3R)-beta,beta-caroten-3-ol
+Macromolecule #46: GLYCEROL
+Macromolecule #47: Tripalmitoylglycerol
+Macromolecule #48: CHLOROPHYLL B
+Macromolecule #49: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
+Macromolecule #50: (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BE...
+Macromolecule #51: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY...
+Macromolecule #52: DODECYL-BETA-D-MALTOSIDE
+Macromolecule #53: ERGOSTEROL
+Macromolecule #54: (2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypro...
+Macromolecule #55: PHOSPHATIDYLETHANOLAMINE
-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 |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number real images: 13586 / Average electron dose: 51.81 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 |