[English] 日本語
![](img/lk-miru.gif)
- PDB-8iwh: Structure and characteristics of a photosystem II supercomplex co... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 8iwh | ||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | Structure and characteristics of a photosystem II supercomplex containing monomeric LHCX and dimeric FCPII antennae from the diatom Thalassiosira pseudonana | ||||||||||||||||||||||||||||||
![]() |
| ||||||||||||||||||||||||||||||
![]() | PHOTOSYNTHESIS / PSII supercomplex / LHCX / FCP | ||||||||||||||||||||||||||||||
Function / homology | ![]() light-harvesting complex / cytochrome c-heme linkage / photosynthesis, light harvesting in photosystem I / photosystem II assembly / photosystem II oxygen evolving complex / photosystem II stabilization / photosystem II / photosystem II reaction center / thylakoid / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor ...light-harvesting complex / cytochrome c-heme linkage / photosynthesis, light harvesting in photosystem I / photosystem II assembly / photosystem II oxygen evolving complex / photosystem II stabilization / photosystem II / photosystem II reaction center / thylakoid / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosynthetic electron transport chain / response to herbicide / photosystem II / plastid / extrinsic component of membrane / chlorophyll binding / photosynthesis, light reaction / 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 / respiratory electron transport chain / chloroplast / electron transfer activity / protein stabilization / iron ion binding / heme binding / membrane / metal ion binding / cytoplasm Similarity search - Function | ||||||||||||||||||||||||||||||
Biological species | ![]() | ||||||||||||||||||||||||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.68 Å | ||||||||||||||||||||||||||||||
![]() | Feng, Y. / Li, Z.H. / Wang, W.D. / Shen, J.R. | ||||||||||||||||||||||||||||||
Funding support | ![]()
| ||||||||||||||||||||||||||||||
![]() | ![]() Title: Structure of a diatom photosystem II supercomplex containing a member of Lhcx family and dimeric FCPII. Authors: Yue Feng / Zhenhua Li / Xiaoyi Li / Lili Shen / Xueyang Liu / Cuicui Zhou / Jinyang Zhang / Min Sang / Guangye Han / Wenqiang Yang / Tingyun Kuang / Wenda Wang / Jian-Ren Shen / ![]() ![]() Abstract: Diatoms rely on fucoxanthin chlorophyll -binding proteins (FCPs) for their great success in oceans, which have a great diversity in their pigment, protein compositions, and subunit organizations. We ...Diatoms rely on fucoxanthin chlorophyll -binding proteins (FCPs) for their great success in oceans, which have a great diversity in their pigment, protein compositions, and subunit organizations. We report a unique structure of photosystem II (PSII)-FCPII supercomplex from at 2.68-Å resolution by cryo-electron microscopy. FCPIIs within this PSII-FCPII supercomplex exist in dimers and monomers, and a homodimer and a heterodimer were found to bind to a PSII core. The FCPII homodimer is formed by Lhcf7 and associates with PSII through an Lhcx family antenna Lhcx6_1, whereas the heterodimer is formed by Lhcf6 and Lhcf11 and connects to the core together with an Lhcf5 monomer through Lhca2 monomer. An extended pigment network consisting of diatoxanthins, diadinoxanthins, fucoxanthins, and chlorophylls is revealed, which functions in efficient light harvesting, energy transfer, and dissipation. These results provide a structural basis for revealing the energy transfer and dissipation mechanisms and also for the structural diversity of FCP antennas in diatoms. | ||||||||||||||||||||||||||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 1.7 MB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 1.4 MB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 16.1 MB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 16.8 MB | Display | |
Data in XML | ![]() | 332.6 KB | Display | |
Data in CIF | ![]() | 424.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 35766MC ![]() 8j0dC M: map data used to model this data C: citing same article ( |
---|---|
Similar structure data | Similarity search - Function & homology ![]() |
-
Links
-
Assembly
Deposited unit | ![]()
|
---|---|
1 |
|
-
Components
-Photosystem II ... , 18 types, 36 molecules AaBbCcDdGgHhIiJjKkLlMmnNTtWwXx...
#1: Protein | Mass: 36982.176 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #2: Protein | Mass: 56465.262 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #3: Protein | Mass: 51776.156 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #4: Protein | Mass: 39089.582 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #7: Protein | Mass: 18176.705 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #8: Protein | Mass: 7391.801 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #9: Protein/peptide | Mass: 3940.673 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #10: Protein/peptide | Mass: 4045.768 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #11: Protein/peptide | Mass: 4983.990 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #12: Protein/peptide | Mass: 4367.076 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #13: Protein | Mass: 12051.050 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #14: Protein/peptide | Mass: 2571.161 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Details: Author stated that sequence was not found / Source: (natural) ![]() #16: Protein/peptide | Mass: 3314.011 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #19: Protein | Mass: 6096.549 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #20: Protein/peptide | Mass: 3933.643 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #21: Protein | Mass: 6417.546 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #27: Protein/peptide | Mass: 3591.463 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #28: Protein | Mass: 22439.217 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() |
---|
-Cytochrome b559 subunit ... , 2 types, 4 molecules EeFf
#5: Protein | Mass: 9521.692 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #6: Protein/peptide | Mass: 4913.846 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() |
---|
-Protein , 5 types, 8 molecules OoUuVv34
#15: Protein | Mass: 32168.496 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #17: Protein | Mass: 15486.596 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #18: Protein | Mass: 17713.232 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #22: Protein | | Mass: 24100.990 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() #23: Protein | | Mass: 21058.961 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() |
---|
-Fucoxanthin chlorophyll a/c ... , 4 types, 8 molecules 56709281
#24: Protein | Mass: 20872.670 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() | ||
---|---|---|---|
#25: Protein | Mass: 21402.484 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() | ||
#26: Protein | Mass: 21279.365 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() #29: Protein | Mass: 20786.684 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Source: (natural) ![]() |
-Sugars , 2 types, 17 molecules ![](data/chem/img/DGD.gif)
![](data/chem/img/LMU.gif)
![](data/chem/img/LMU.gif)
#38: Sugar | ChemComp-DGD / #43: Sugar | ChemComp-LMU / |
---|
-Non-polymers , 17 types, 330 molecules ![](data/chem/img/BCR.gif)
![](data/chem/img/OEX.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/CLA.gif)
![](data/chem/img/PHO.gif)
![](data/chem/img/BCT.gif)
![](data/chem/img/LHG.gif)
![](data/chem/img/SQD.gif)
![](data/chem/img/LMG.gif)
![](data/chem/img/FE2.gif)
![](data/chem/img/PL9.gif)
![](data/chem/img/HEM.gif)
![](data/chem/img/KC1.gif)
![](data/chem/img/A86.gif)
![](data/chem/img/DD6.gif)
![](data/chem/img/KC2.gif)
![](data/chem/img/ET4.gif)
![](data/chem/img/OEX.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/CLA.gif)
![](data/chem/img/PHO.gif)
![](data/chem/img/BCT.gif)
![](data/chem/img/LHG.gif)
![](data/chem/img/SQD.gif)
![](data/chem/img/LMG.gif)
![](data/chem/img/FE2.gif)
![](data/chem/img/PL9.gif)
![](data/chem/img/HEM.gif)
![](data/chem/img/KC1.gif)
![](data/chem/img/A86.gif)
![](data/chem/img/DD6.gif)
![](data/chem/img/KC2.gif)
![](data/chem/img/ET4.gif)
#30: Chemical | ChemComp-BCR / #31: Chemical | #32: Chemical | #33: Chemical | ChemComp-CLA / #34: Chemical | ChemComp-PHO / #35: Chemical | #36: Chemical | ChemComp-LHG / #37: Chemical | ChemComp-SQD / #39: Chemical | ChemComp-LMG / #40: Chemical | #41: Chemical | #42: Chemical | ChemComp-HEM / #44: Chemical | #45: Chemical | ChemComp-A86 / ( #46: Chemical | ChemComp-DD6 / ( #47: Chemical | ChemComp-KC2 / #48: Chemical | |
---|