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Open data
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Basic information
Entry | ![]() | ||||||||||||
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Title | PSII-Pcb Dimer of Acaryochloris Marina | ||||||||||||
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![]() | Photosystem II / Pcb / PHOTOSYNTHESIS | ||||||||||||
Function / homology | ![]() photosystem / 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 ...photosystem / 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 / manganese ion binding / 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: 3.3 Å | ||||||||||||
![]() | Shen LL / Gao YZ / Wang WD / Zhang X / Shen JR / Wang PY / Han GY | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of a large photosystem II supercomplex from Acaryochloris marina. Authors: Shen LL / Gao YZ / Wang WD / Zhang X / Shen JR / Wang PY / Han GY | ||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 31.3 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 37.7 KB 37.7 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 17 KB | Display | ![]() |
Images | ![]() | 52.5 KB | ||
Masks | ![]() | 421.9 MB | ![]() | |
Others | ![]() ![]() | 372.6 MB 373.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 723 KB | Display | ![]() |
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Full document | ![]() | 722.6 KB | Display | |
Data in XML | ![]() | 24.4 KB | Display | |
Data in CIF | ![]() | 32.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7ymiMC ![]() 7ymmC 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: 1.07 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Density Histograms |
-Half map: #1
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Density Histograms |
-Half map: #2
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Density Histograms |
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Sample components
+Entire : PSII-Pcb Dimer of Acaryochloris Marina
+Supramolecule #1: PSII-Pcb Dimer of Acaryochloris Marina
+Macromolecule #1: Photosystem II protein D1 2
+Macromolecule #2: Photosystem II CP47 reaction center protein
+Macromolecule #3: Photosystem II CP43 reaction center protein
+Macromolecule #4: Photosystem II D2 protein 1
+Macromolecule #5: Cytochrome b559 subunit alpha
+Macromolecule #6: Photosystem II protein Y
+Macromolecule #7: Photosystem II 10 kDa phosphoprotein PsbH
+Macromolecule #8: Photosystem II protein PsbI
+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: High light inducible protein
+Macromolecule #17: Unknown protein
+Macromolecule #18: High light inducible protein
+Macromolecule #19: High light inducible protein
+Macromolecule #20: High light inducible protein
+Macromolecule #21: CHLOROPHYLL D
+Macromolecule #22: PHEOPHYTIN A
+Macromolecule #23: (6'R,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta...
+Macromolecule #24: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
+Macromolecule #25: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
+Macromolecule #26: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
+Macromolecule #27: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
+Macromolecule #28: FE (II) ION
+Macromolecule #29: BICARBONATE ION
+Macromolecule #30: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,...
+Macromolecule #31: PROTOPORPHYRIN IX CONTAINING FE
+Macromolecule #32: (1R,2S)-4-{(1E,3E,5E,7E,9E,11E,13E,15E,17E)-18-[(4S)-4-hydroxy-2,...
-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) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |