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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-11615 | |||||||||
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Title | Assembly intermediate of the plant mitochondrial complex I | |||||||||
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Function / homology | ![]() L-galactonolactone dehydrogenase / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Soufari H / Waltz F / Hashem Y | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Specific features and assembly of the plant mitochondrial complex I revealed by cryo-EM. Authors: Heddy Soufari / Camila Parrot / Lauriane Kuhn / Florent Waltz / Yaser Hashem / ![]() Abstract: Mitochondria are the powerhouses of eukaryotic cells and the site of essential metabolic reactions. Complex I or NADH:ubiquinone oxidoreductase is the main entry site for electrons into the ...Mitochondria are the powerhouses of eukaryotic cells and the site of essential metabolic reactions. Complex I or NADH:ubiquinone oxidoreductase is the main entry site for electrons into the mitochondrial respiratory chain and constitutes the largest of the respiratory complexes. Its structure and composition vary across eukaryote species. However, high resolution structures are available only for one group of eukaryotes, opisthokonts. In plants, only biochemical studies were carried out, already hinting at the peculiar composition of complex I in the green lineage. Here, we report several cryo-electron microscopy structures of the plant mitochondrial complex I. We describe the structure and composition of the plant respiratory complex I, including the ancestral mitochondrial domain composed of the carbonic anhydrase. We show that the carbonic anhydrase is a heterotrimeric complex with only one conserved active site. This domain is crucial for the overall stability of complex I as well as a peculiar lipid complex composed of cardiolipin and phosphatidylinositols. Moreover, we also describe the structure of one of the plant-specific complex I assembly intermediates, lacking the whole P module, in presence of the maturation factor GLDH. GLDH prevents the binding of the plant specific P1 protein, responsible for the linkage of the P to the P module. | |||||||||
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 | ![]() | 162.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 43.3 KB 43.3 KB | Display Display | ![]() |
Images | ![]() | 23.2 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7a24MC ![]() 7a23C C: citing same article ( M: atomic model generated by this map |
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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
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | test | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.11 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 : Plant mitochondrial respiratory complex I assembly intermediate i...
+Supramolecule #1: Plant mitochondrial respiratory complex I assembly intermediate i...
+Macromolecule #1: 51kDa
+Macromolecule #2: Nad2m
+Macromolecule #3: Nad3m
+Macromolecule #4: Nad6m
+Macromolecule #5: Nad1m
+Macromolecule #6: Nad4Lm
+Macromolecule #7: PGIV
+Macromolecule #8: B16.6
+Macromolecule #9: MWFE
+Macromolecule #10: B9
+Macromolecule #11: B14.5a
+Macromolecule #12: B14.5b
+Macromolecule #13: 15kDa
+Macromolecule #14: Nad7m
+Macromolecule #15: 75kDa
+Macromolecule #16: 39kDa
+Macromolecule #17: Nad9m
+Macromolecule #18: 24kDa
+Macromolecule #19: 18kDa
+Macromolecule #20: 13kDa
+Macromolecule #21: B13
+Macromolecule #22: B17.2
+Macromolecule #23: PSST
+Macromolecule #24: TYKY
+Macromolecule #25: B14
+Macromolecule #26: MNLL
+Macromolecule #27: B8
+Macromolecule #28: ACPM1
+Macromolecule #29: Unk1
+Macromolecule #30: P2
+Macromolecule #31: CAL1
+Macromolecule #32: CA1
+Macromolecule #33: GLDH
+Macromolecule #34: IRON/SULFUR CLUSTER
+Macromolecule #35: FLAVIN MONONUCLEOTIDE
+Macromolecule #36: Phosphatidylinositol
+Macromolecule #37: CARDIOLIPIN
+Macromolecule #38: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY...
+Macromolecule #39: FE2/S2 (INORGANIC) CLUSTER
+Macromolecule #40: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
+Macromolecule #41: ZINC ION
+Macromolecule #42: BICARBONATE ION
-Experimental details
-Structure determination
Method | ![]() |
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Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Grid | Model: Quantifoil R2/2 / Material: COPPER / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TALOS ARCTICA |
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Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD![]() |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 45.0 e/Å2 |
Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |
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Image processing
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
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Final angle assignment | Type: MAXIMUM LIKELIHOOD |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.0.8) / Number images used: 36513 |