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- EMDB-29685: 48-nm doublet microtubule from Tetrahymena thermophila strain CU428 -
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Open data
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Basic information
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Title | 48-nm doublet microtubule from Tetrahymena thermophila strain CU428 | |||||||||
![]() | composite map of 48-nm doublet from Tetrahymena strain CU428 | |||||||||
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![]() | Cilia / Axoneme / Doublet Microtubule / Microtubule Inner Protein / STRUCTURAL PROTEIN | |||||||||
Function / homology | ![]() cilium-dependent cell motility / regulation of cilium beat frequency involved in ciliary motility / axoneme assembly / axonemal microtubule / cilium organization / nucleoside-diphosphate kinase / CTP biosynthetic process / UTP biosynthetic process / motile cilium / positive regulation of cell motility ...cilium-dependent cell motility / regulation of cilium beat frequency involved in ciliary motility / axoneme assembly / axonemal microtubule / cilium organization / nucleoside-diphosphate kinase / CTP biosynthetic process / UTP biosynthetic process / motile cilium / positive regulation of cell motility / GTP biosynthetic process / regulation of neuron projection development / nucleoside diphosphate kinase activity / axoneme / mitotic cytokinesis / alpha-tubulin binding / cilium assembly / Hsp70 protein binding / mitotic spindle organization / acrosomal vesicle / ciliary basal body / meiotic cell cycle / cell projection / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / Hsp90 protein binding / structural constituent of cytoskeleton / mitotic spindle / cilium / microtubule cytoskeleton organization / mitotic cell cycle / microtubule / vesicle / cytoskeleton / hydrolase activity / calmodulin binding / neuron projection / phosphorylation / GTPase activity / centrosome / calcium ion binding / GTP binding / ATP binding / nucleus / metal ion binding / cytoplasm / cytosol Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.1 Å | |||||||||
![]() | Black CS / Kubo S / Yang SK / Bui KH | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Native doublet microtubules from Tetrahymena thermophila reveal the importance of outer junction proteins. Authors: Shintaroh Kubo / Corbin S Black / Ewa Joachimiak / Shun Kai Yang / Thibault Legal / Katya Peri / Ahmad Abdelzaher Zaki Khalifa / Avrin Ghanaeian / Caitlyn L McCafferty / Melissa Valente- ...Authors: Shintaroh Kubo / Corbin S Black / Ewa Joachimiak / Shun Kai Yang / Thibault Legal / Katya Peri / Ahmad Abdelzaher Zaki Khalifa / Avrin Ghanaeian / Caitlyn L McCafferty / Melissa Valente-Paterno / Chelsea De Bellis / Phuong M Huynh / Zhe Fan / Edward M Marcotte / Dorota Wloga / Khanh Huy Bui / ![]() ![]() ![]() Abstract: Cilia are ubiquitous eukaryotic organelles responsible for cellular motility and sensory functions. The ciliary axoneme is a microtubule-based cytoskeleton consisting of two central singlets and nine ...Cilia are ubiquitous eukaryotic organelles responsible for cellular motility and sensory functions. The ciliary axoneme is a microtubule-based cytoskeleton consisting of two central singlets and nine outer doublet microtubules. Cryo-electron microscopy-based studies have revealed a complex network inside the lumen of both tubules composed of microtubule-inner proteins (MIPs). However, the functions of most MIPs remain unknown. Here, we present single-particle cryo-EM-based analyses of the Tetrahymena thermophila native doublet microtubule and identify 42 MIPs. These data shed light on the evolutionarily conserved and diversified roles of MIPs. In addition, we identified MIPs potentially responsible for the assembly and stability of the doublet outer junction. Knockout of the evolutionarily conserved outer junction component CFAP77 moderately diminishes Tetrahymena swimming speed and beat frequency, indicating the important role of CFAP77 and outer junction stability in cilia beating generation and/or regulation. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 456.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 72.3 KB 72.3 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 18 KB | Display | ![]() |
Images | ![]() | 182.7 KB | ||
Masks | ![]() | 512 MB | ![]() | |
Others | ![]() ![]() | 412.6 MB 412.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8g2zMC ![]() 8g3dC 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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Annotation | composite map of 48-nm doublet from Tetrahymena strain CU428 | ||||||||||||||||||||
Voxel size | X=Y=Z: 1.37 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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Projections & Slices |
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Density Histograms |
-Half map: half map 2 of 48-nm doublet from Tetrahymena strain CU428
File | emd_29685_half_map_1.map | ||||||||||||
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Annotation | half map 2 of 48-nm doublet from Tetrahymena strain CU428 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: half map 1 of 48-nm doublet from Tetrahymena strain CU428
File | emd_29685_half_map_2.map | ||||||||||||
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Annotation | half map 1 of 48-nm doublet from Tetrahymena strain CU428 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
+Entire : 48-nm repeat unit of microtubule doublet from Tetrahymena thermop...
+Supramolecule #1: 48-nm repeat unit of microtubule doublet from Tetrahymena thermop...
+Macromolecule #1: RIB27A
+Macromolecule #2: RIB38
+Macromolecule #3: CFAM166B
+Macromolecule #4: CFAM166A
+Macromolecule #5: RIB22
+Macromolecule #6: CFAM166C
+Macromolecule #7: CFAP107
+Macromolecule #8: CFAP127
+Macromolecule #9: CFAP161A
+Macromolecule #10: CFAP20
+Macromolecule #11: Parkin co-regulated protein PACRGA
+Macromolecule #12: IJ34
+Macromolecule #13: CFAP52A
+Macromolecule #14: DNA polymerase delta C4-type zinc-finger protein
+Macromolecule #15: RIB43A protein
+Macromolecule #16: RIB57
+Macromolecule #17: CFAP182A
+Macromolecule #18: CFAP143
+Macromolecule #19: CFAP21A
+Macromolecule #20: CFAP53
+Macromolecule #21: CFAP115
+Macromolecule #22: Nucleoside diphosphate kinase
+Macromolecule #23: Cilia- and flagella-associated protein 45
+Macromolecule #24: CFAP210
+Macromolecule #25: RIB72B
+Macromolecule #26: Protofilament ribbon protein
+Macromolecule #27: RIB35
+Macromolecule #28: CFAP182B
+Macromolecule #29: Flagellar FliJ protein
+Macromolecule #30: RIB27B
+Macromolecule #31: STPG2
+Macromolecule #32: RIB26
+Macromolecule #33: CFAP129
+Macromolecule #34: Flagellar microtubule protofilament ribbon protein
+Macromolecule #35: Parkin co-regulated protein PACRGB
+Macromolecule #36: OJ2
+Macromolecule #37: CFAP77A
+Macromolecule #38: OJ3
+Macromolecule #39: SB1
+Macromolecule #40: STPG1A
+Macromolecule #41: Nebulin
+Macromolecule #42: B5B6_fMIP
+Macromolecule #43: CFAP112A
+Macromolecule #44: B2B3_fMIP
+Macromolecule #45: Tubulin alpha chain
+Macromolecule #46: Tubulin beta chain
+Macromolecule #47: GUANOSINE-5'-TRIPHOSPHATE
+Macromolecule #48: MAGNESIUM ION
+Macromolecule #49: GUANOSINE-5'-DIPHOSPHATE
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | cell |
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Sample preparation
Concentration | 2.2 mg/mL |
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Buffer | pH: 7.4 |
Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 45.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |