+Open data
-Basic information
Entry | Database: PDB / ID: 6kaf | ||||||||||||
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Title | C2S2M2N2-type PSII-LHCII | ||||||||||||
Components |
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Keywords | PHOTOSYNTHESIS / Photosystem II / C2S2M2N2-type PSII-LHCII | ||||||||||||
Function / homology | Function and homology information thylakoid light-harvesting complex / photosystem II antenna complex / PSII associated light-harvesting complex II / nonphotochemical quenching / photosynthesis, light harvesting in photosystem I / photosynthesis, light harvesting / photosystem II assembly / photosystem II stabilization / oxygen evolving activity / photosystem II oxygen evolving complex ...thylakoid light-harvesting complex / photosystem II antenna complex / PSII associated light-harvesting complex II / nonphotochemical quenching / photosynthesis, light harvesting in photosystem I / photosynthesis, light harvesting / photosystem II assembly / photosystem II stabilization / oxygen evolving activity / photosystem II oxygen evolving complex / photosystem II / photosystem II reaction center / photosynthetic electron transport chain / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosystem I / response to herbicide / photosystem II / photosynthetic electron transport in photosystem II / chlorophyll binding / chloroplast thylakoid membrane / photosynthesis, light reaction / electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity / phosphate ion binding / response to light stimulus / photosynthesis / electron transfer activity / protein stabilization / iron ion binding / protein domain specific binding / mRNA binding / heme binding / metal ion binding Similarity search - Function | ||||||||||||
Biological species | Chlamydomonas reinhardtii (plant) | ||||||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.73 Å | ||||||||||||
Authors | Chang, S.H. / Shen, L.L. / Huang, Z.H. / Wang, W.D. / Han, G.Y. / Shen, J.R. / Zhang, X. | ||||||||||||
Funding support | China, 3items
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Citation | Journal: Proc Natl Acad Sci U S A / Year: 2019 Title: Structure of a CSMN-type PSII-LHCII supercomplex from the green alga . Authors: Liangliang Shen / Zihui Huang / Shenghai Chang / Wenda Wang / Jingfen Wang / Tingyun Kuang / Guangye Han / Jian-Ren Shen / Xing Zhang / Abstract: Photosystem II (PSII) in the thylakoid membranes of plants, algae, and cyanobacteria catalyzes light-induced oxidation of water by which light energy is converted to chemical energy and molecular ...Photosystem II (PSII) in the thylakoid membranes of plants, algae, and cyanobacteria catalyzes light-induced oxidation of water by which light energy is converted to chemical energy and molecular oxygen is produced. In higher plants and most eukaryotic algae, the PSII core is surrounded by variable numbers of light-harvesting antenna complex II (LHCII), forming a PSII-LHCII supercomplex. In order to harvest energy efficiently at low-light-intensity conditions under water, a complete PSII-LHCII supercomplex (CSMN) of the green alga (Cr) contains more antenna subunits and pigments than the dominant PSII-LHCII supercomplex (CSM) of plants. The detailed structure and energy transfer pathway of the Cr-PSII-LHCII remain unknown. Here we report a cryoelectron microscopy structure of a complete, CSMN-type PSII-LHCII supercomplex from at 3.37-Å resolution. The results show that the Cr-CSMN supercomplex is organized as a dimer, with 3 LHCII trimers, 1 CP26, and 1 CP29 peripheral antenna subunits surrounding each PSII core. The N-LHCII trimer partially occupies the position of CP24, which is present in the higher-plant PSII-LHCII but absent in the green alga. The M trimer is rotated relative to the corresponding M trimer in plant PSII-LHCII. In addition, some unique features were found in the green algal PSII core. The arrangement of a huge number of pigments allowed us to deduce possible energy transfer pathways from the peripheral antennae to the PSII core. | ||||||||||||
History |
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-Structure visualization
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Structure viewer | Molecule: MolmilJmol/JSmol |
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PDBx/mmCIF format | 6kaf.cif.gz | 2.2 MB | Display | PDBx/mmCIF format |
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PDB format | pdb6kaf.ent.gz | Display | PDB format | |
PDBx/mmJSON format | 6kaf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ka/6kaf ftp://data.pdbj.org/pub/pdb/validation_reports/ka/6kaf | HTTPS FTP |
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-Related structure data
Related structure data | 9957MC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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-Components
-Protein , 3 types, 6 molecules rRoOxX
#1: Protein | Mass: 29970.846 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: Q93WD2 #11: Protein | Mass: 30614.748 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: A8J0E4 #14: Protein | Mass: 9894.716 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: A8I846 |
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-Photosystem II ... , 14 types, 28 molecules aAdDhHiIjJkKlLmMtTwWzZYyCcBb
#2: Protein | Mass: 39066.340 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P07753, photosystem II #3: Protein | Mass: 39474.031 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P06007, photosystem II #5: Protein | Mass: 9445.063 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P22666 #6: Protein/peptide | Mass: 4245.035 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P59763 #7: Protein/peptide | Mass: 5725.746 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) #8: Protein/peptide | Mass: 5062.142 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P18263 #9: Protein/peptide | Mass: 4431.229 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P32974 #10: Protein/peptide | Mass: 3762.433 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P92277 #12: Protein/peptide | Mass: 3639.438 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P37256 #13: Protein | Mass: 12155.054 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: Q9SPI9 #15: Protein | Mass: 6565.863 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P92276 #16: Protein/peptide | Mass: 3333.058 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) #20: Protein | Mass: 50680.738 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P10898 #21: Protein | Mass: 56159.820 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P37255 |
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-Cytochrome b559 subunit ... , 2 types, 4 molecules fFEe
#4: Protein/peptide | Mass: 4986.013 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: Q08363 #17: Protein | Mass: 9312.598 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: P48268 |
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-Chlorophyll a-b binding protein, ... , 2 types, 20 molecules 123456vpqVPQUNGungSs
#18: Protein | Mass: 27405.008 Da / Num. of mol.: 18 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: Q93WL4 #19: Protein | Mass: 30742.830 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Chlamydomonas reinhardtii (plant) / References: UniProt: Q9FEK6 |
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-Sugars , 1 types, 10 molecules
#36: Sugar | ChemComp-DGD / |
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-Non-polymers , 15 types, 542 molecules
#22: Chemical | ChemComp-CLA / #23: Chemical | ChemComp-LUT / ( #24: Chemical | ChemComp-XAT / ( #25: Chemical | ChemComp-LHG / #26: Chemical | ChemComp-CHL / #27: Chemical | ChemComp-NEX / ( #28: Chemical | #29: Chemical | ChemComp-CL / #30: Chemical | ChemComp-PHO / #31: Chemical | ChemComp-BCR / #32: Chemical | ChemComp-SQD / #33: Chemical | ChemComp-PL9 / |
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