48-nm doublet microtubule from Tetrahymena thermophila strain K40R
Map data
composite map of 48-nm doublet from Tetrahymena strain K40R
Sample
Organelle or cellular component: 48-nm repeat unit of microtubule doublet from Tetrahymena thermophila strain CU428
Protein or peptide: x 46 types
Ligand: x 3 types
Keywords
Cilia / Axoneme / Doublet Microtubule / Microtubule Inner Protein / STRUCTURAL PROTEIN
Function / homology
Function and homology information
cilium-dependent cell motility / membrane-bounded organelle / regulation of cilium beat frequency involved in ciliary motility / axoneme assembly / axonemal microtubule / nucleoside-diphosphate kinase / UTP biosynthetic process / CTP biosynthetic process / motile cilium / positive regulation of cell motility ...cilium-dependent cell motility / membrane-bounded organelle / regulation of cilium beat frequency involved in ciliary motility / axoneme assembly / axonemal microtubule / nucleoside-diphosphate kinase / UTP biosynthetic process / CTP biosynthetic process / motile cilium / positive regulation of cell motility / GTP biosynthetic process / nucleoside diphosphate kinase activity / intracellular membraneless organelle / axoneme / mitotic cytokinesis / cilium assembly / alpha-tubulin binding / Hsp70 protein binding / mitotic spindle organization / ciliary basal body / cell projection / meiotic cell cycle / Hsp90 protein binding / cilium / structural constituent of cytoskeleton / mitotic spindle / microtubule cytoskeleton organization / mitotic cell cycle / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / microtubule / cytoskeleton / calmodulin binding / hydrolase activity / GTPase activity / centrosome / calcium ion binding / GTP binding / ATP binding / nucleus / metal ion binding / cytoplasm Similarity search - Function
: / CCDC81, HU domain 1 / CCDC81, HU domain 2 / CCDC81 eukaryotic HU domain 1 / CCDC81 eukaryotic HU domain 2 / Sperm-tail PG-rich repeat / Sperm-tail PG-rich repeat / Cilia- and flagella-associated protein 77 / : / Cilia- and flagella-associated protein 77 ...: / CCDC81, HU domain 1 / CCDC81, HU domain 2 / CCDC81 eukaryotic HU domain 1 / CCDC81 eukaryotic HU domain 2 / Sperm-tail PG-rich repeat / Sperm-tail PG-rich repeat / Cilia- and flagella-associated protein 77 / : / Cilia- and flagella-associated protein 77 / Uncharacterised protein FAM166/UPF0605 / Ciliary microtubule inner protein 2B-like / Nucleoside diphosphate kinase 7 / Meiosis-specific nuclear structural protein 1 / Piercer of microtubule wall 1/2 / Cilia- and flagella-associated protein 141 / Cilia- and flagella-associated protein 45 / NDPK7, second NDPk domain / Cilia- and flagella- associated protein 210 / CFAP53/TCHP / Trichohyalin-plectin-homology domain / Trichohyalin-plectin-homology domain / Piercer of microtubule wall 1/2 / Cilia- and flagella-associated protein 141 / RIB43A / RIB43A / DM10 domain / EF-hand domain-containing protein EFHC1/EFHC2/EFHB / : / DM10 domain / DM10 domain profile. / Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases. / Enkurin domain / : / Calmodulin-binding / Enkurin domain profile. / CFA20 domain / Cilia- and flagella-associated protein 20/CFAP20DC / : / CFA20 domain / Parkin co-regulated protein / Parkin co-regulated protein / Dienelactone hydrolase / Dienelactone hydrolase family / Nucleoside diphosphate kinase, active site / Nucleoside diphosphate kinase (NDPK) active site signature. / Nucleoside diphosphate kinase / Nucleoside diphosphate kinase-like domain / Nucleoside diphosphate kinase / NDK / Nucleoside diphosphate kinase-like domain superfamily / EF-hand domain pair / Mir domain superfamily / Alpha tubulin / Tubulin-beta mRNA autoregulation signal. / Beta tubulin, autoregulation binding site / Beta tubulin / Tubulin / Tubulin, C-terminal / Tubulin C-terminal domain / Tubulin, conserved site / Tubulin subunits alpha, beta, and gamma signature. / Tubulin/FtsZ family, C-terminal domain / Tubulin/FtsZ-like, C-terminal domain / Tubulin/FtsZ, C-terminal / Tubulin/FtsZ, 2-layer sandwich domain / Tubulin/FtsZ family, GTPase domain / Tubulin/FtsZ family, GTPase domain / Tubulin/FtsZ, GTPase domain / Tubulin/FtsZ, GTPase domain superfamily / EF-hand domain pair / EF-hand, calcium binding motif / EF-Hand 1, calcium-binding site / EF-hand calcium-binding domain. / EF-hand calcium-binding domain profile. / EF-hand domain / EF-hand domain pair / Alpha/Beta hydrolase fold / Armadillo-type fold / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / WD domain, G-beta repeat / WD40 repeats / WD40 repeat / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily Similarity search - Domain/homology
Flagellar FliJ protein / Uncharacterized protein / RIB43A protein / EF hand protein / Uncharacterized protein / Meiosis-specific nuclear structural protein 1 / EF-hand domain-containing family member C2 / DNA polymerase delta C4-type zinc-finger protein / Sperm-tail PG-rich repeat protein / Parkin co-regulated protein ...Flagellar FliJ protein / Uncharacterized protein / RIB43A protein / EF hand protein / Uncharacterized protein / Meiosis-specific nuclear structural protein 1 / EF-hand domain-containing family member C2 / DNA polymerase delta C4-type zinc-finger protein / Sperm-tail PG-rich repeat protein / Parkin co-regulated protein / Ptype ATPase, putative / Uncharacterized protein / EF-hand protein / EF-hand pair protein / EF-hand pair protein / Uncharacterized protein / Parkin co-regulated protein / Uncharacterized protein / Tubulin alpha chain / Tubulin beta chain / Uncharacterized protein / Uncharacterized protein / Cilia- and flagella-associated protein 20 / EF hand protein, putative / Sperm-tail PG-rich repeat protein / Cilia- and flagella-associated protein 52 / Uncharacterized protein / Uncharacterized protein / Dienelactone hydrolase family protein / Ciliary microtubule inner protein 2A-C-like domain-containing protein / Uncharacterized protein / Uncharacterized protein / Ciliary microtubule inner protein 2A-C-like domain-containing protein / Trichohyalin-plectin-homology domain-containing protein / STOP protein / EF hand protein / Cilia- and flagella-associated protein 53 / Protofilament ribbon protein / Uncharacterized protein / Sperm-tail PG-rich repeat protein / Cilia- and flagella-associated protein 45 / Nucleoside diphosphate kinase Similarity search - Component
Biological species
Tetrahymena thermophila (eukaryote)
Method
single particle reconstruction / cryo EM / Resolution: 3.7 Å
Journal: Nat Commun / Year: 2023 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.
Entire : 48-nm repeat unit of microtubule doublet from Tetrahymena thermop...
Entire
Name: 48-nm repeat unit of microtubule doublet from Tetrahymena thermophila strain CU428
Components
Organelle or cellular component: 48-nm repeat unit of microtubule doublet from Tetrahymena thermophila strain CU428
Protein or peptide: RIB27A
Protein or peptide: RIB38
Protein or peptide: CFAM166B
Protein or peptide: CFAM166A
Protein or peptide: RIB22
Protein or peptide: CFAM166C
Protein or peptide: CFAP107
Protein or peptide: CFAP127
Protein or peptide: CFAP161A
Protein or peptide: CFAP20
Protein or peptide: Parkin co-regulated protein PACRGA
Protein or peptide: IJ34
Protein or peptide: Cilia- and flagella-associated protein 52
Protein or peptide: DNA polymerase delta C4-type zinc-finger protein
Protein or peptide: RIB43A protein
Protein or peptide: RIB57
Protein or peptide: CFAP182A
Protein or peptide: CFAP143
Protein or peptide: CFAP21A
Protein or peptide: Cilia- and flagella-associated protein 53
Protein or peptide: CFAP115
Protein or peptide: Nucleoside diphosphate kinase
Protein or peptide: Cilia- and flagella-associated protein 45
Protein or peptide: CFAP210
Protein or peptide: RIB72B
Protein or peptide: Protofilament ribbon protein
Protein or peptide: RIB35
Protein or peptide: CFAP182B
Protein or peptide: Flagellar FliJ protein
Protein or peptide: RIB27B
Protein or peptide: STPG2
Protein or peptide: RIB26
Protein or peptide: CFAP129
Protein or peptide: Flagellar microtugule protofilament ribbon protein
Protein or peptide: Parkin co-regulated protein PACRGB
Protein or peptide: OJ2
Protein or peptide: CFAP77A
Protein or peptide: OJ3
Protein or peptide: SB1
Protein or peptide: STPG1A
Protein or peptide: Nebulin
Protein or peptide: B5B6_fMIP
Protein or peptide: CFAP112A
Protein or peptide: B2B3_fMIP
Protein or peptide: Tubulin alpha chain
Protein or peptide: Tubulin beta chain
Ligand: GUANOSINE-5'-TRIPHOSPHATE
Ligand: MAGNESIUM ION
Ligand: GUANOSINE-5'-DIPHOSPHATE
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Supramolecule #1: 48-nm repeat unit of microtubule doublet from Tetrahymena thermop...
Supramolecule
Name: 48-nm repeat unit of microtubule doublet from Tetrahymena thermophila strain CU428 type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: #1-#46 Details: Single Particle Analysis of the 48-nm repeating unit of the axoneme from intact cilia purified from Tetrahymena strain CU428
Name: Tubulin alpha chain / type: protein_or_peptide / ID: 45 / Number of copies: 161 / Enantiomer: LEVO EC number: Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement
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Keywords
Function and homology information
Tetrahymena thermophila (eukaryote)
Authors
Canada, 1 items 
Citation
Structure visualization
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emd_29692.png
http://ftp.pdbj.org/pub/emdb/structures/EMD-29692
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Electron microscopy
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