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- EMDB-35230: In situ structure of axonemal doublet microtubules in mouse sperm... -
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Basic information
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Title | In situ structure of axonemal doublet microtubules in mouse sperm with 48-nm repeat | |||||||||
![]() | In situ structure of axonemal doublet microtubules in mouse sperm with 48-nm repeat | |||||||||
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![]() | microtubules / axoneme / sperm / filament / STRUCTURAL PROTEIN | |||||||||
Function / homology | ![]() male germ-line stem cell population maintenance / 9+0 motile cilium / sperm flagellum assembly / outer acrosomal membrane / regulation of brood size / establishment of left/right asymmetry / protein localization to motile cilium / manchette assembly / Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane / Cilium Assembly ...male germ-line stem cell population maintenance / 9+0 motile cilium / sperm flagellum assembly / outer acrosomal membrane / regulation of brood size / establishment of left/right asymmetry / protein localization to motile cilium / manchette assembly / Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane / Cilium Assembly / Sealing of the nuclear envelope (NE) by ESCRT-III / left/right pattern formation / axonemal B tubule inner sheath / axonemal A tubule inner sheath / epithelial cilium movement involved in determination of left/right asymmetry / regulation of calcineurin-NFAT signaling cascade / inner dynein arm assembly / Intraflagellar transport / Carboxyterminal post-translational modifications of tubulin / protein polyglutamylation / positive regulation of feeding behavior / cerebrospinal fluid circulation / sperm axoneme assembly / COPI-independent Golgi-to-ER retrograde traffic / cilium-dependent cell motility / sperm principal piece / MAP kinase tyrosine/serine/threonine phosphatase activity / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / regulation of cilium beat frequency involved in ciliary motility / cilium movement involved in cell motility / regulation of store-operated calcium entry / epithelial cilium movement involved in extracellular fluid movement / 9+2 motile cilium / intraciliary transport / PKR-mediated signaling / COPI-mediated anterograde transport / protein localization to organelle / calcium ion sensor activity / Aggrephagy / Transferases; Transferring phosphorus-containing groups / acrosomal membrane / Kinesins / ciliary transition zone / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / cilium movement / Resolution of Sister Chromatid Cohesion / RHO GTPases activate IQGAPs / The role of GTSE1 in G2/M progression after G2 checkpoint / Recycling pathway of L1 / axoneme assembly / axonemal microtubule / left/right axis specification / cilium organization / COPI-dependent Golgi-to-ER retrograde traffic / gamma-tubulin ring complex / flagellated sperm motility / RHO GTPases Activate Formins / Separation of Sister Chromatids / Hedgehog 'off' state / Loss of Nlp from mitotic centrosomes / Recruitment of mitotic centrosome proteins and complexes / Loss of proteins required for interphase microtubule organization from the centrosome / Recruitment of NuMA to mitotic centrosomes / Anchoring of the basal body to the plasma membrane / AURKA Activation by TPX2 / Regulation of PLK1 Activity at G2/M Transition / manchette / positive regulation of cilium assembly / MHC class II antigen presentation / protein targeting to mitochondrion / CTP biosynthetic process / UTP biosynthetic process / motile cilium / positive regulation of cell motility / determination of left/right symmetry / protein targeting to membrane / GTP biosynthetic process / microtubule organizing center / intermediate filament / regulation of neuron projection development / ciliary base / tubulin complex / nucleoside diphosphate kinase activity / myosin phosphatase activity / intercellular bridge / extrinsic component of membrane / protein-serine/threonine phosphatase / beta-tubulin binding / regulation of cell division / AMP binding / receptor clustering / axoneme / phosphatase activity / cytoplasmic microtubule / microtubule-based process / centriolar satellite / mitotic cytokinesis / spermatid development / alpha-tubulin binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 6.5 Å | |||||||||
![]() | Zhu Y / Yin GL / Tai LH / Sun F | |||||||||
Funding support | ![]()
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![]() | ![]() Title: In-cell structural insight into the stability of sperm microtubule doublet. Authors: Linhua Tai / Guoliang Yin / Xiaojun Huang / Fei Sun / Yun Zhu / ![]() Abstract: The propulsion for mammalian sperm swimming is generated by flagella beating. Microtubule doublets (DMTs) along with microtubule inner proteins (MIPs) are essential structural blocks of flagella. ...The propulsion for mammalian sperm swimming is generated by flagella beating. Microtubule doublets (DMTs) along with microtubule inner proteins (MIPs) are essential structural blocks of flagella. However, the intricate molecular architecture of intact sperm DMT remains elusive. Here, by in situ cryo-electron tomography, we solved the in-cell structure of mouse sperm DMT at 4.5-7.5 Å resolutions, and built its model with 36 kinds of MIPs in 48 nm periodicity. We identified multiple copies of Tektin5 that reinforce Tektin bundle, and multiple MIPs with different periodicities that anchor the Tektin bundle to tubulin wall. This architecture contributes to a superior stability of A-tubule than B-tubule of DMT, which was revealed by structural comparison of DMTs from the intact and deformed axonemes. Our work provides an overall molecular picture of intact sperm DMT in 48 nm periodicity that is essential to understand the molecular mechanism of sperm motility as well as the related ciliopathies. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 56.3 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 57.4 KB 57.4 KB | Display Display | ![]() |
Images | ![]() | 165.9 KB | ||
Filedesc metadata | ![]() | 16.6 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 636.6 KB | Display | ![]() |
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Full document | ![]() | 636.2 KB | Display | |
Data in XML | ![]() | 6.5 KB | Display | |
Data in CIF | ![]() | 7.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8i7rMC ![]() 8i7oC C: citing same article ( M: atomic model generated by this map |
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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 | In situ structure of axonemal doublet microtubules in mouse sperm with 48-nm repeat | ||||||||||||||||||||
Voxel size | X=Y=Z: 1.76 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
+Entire : mouse sperm
+Supramolecule #1: mouse sperm
+Macromolecule #1: Meiosis-specific nuclear structural protein 1
+Macromolecule #2: Tektin-1
+Macromolecule #3: Tubulin beta-4B chain
+Macromolecule #4: Detyrosinated tubulin alpha-3 chain
+Macromolecule #5: Tektin-2
+Macromolecule #6: Nucleoside diphosphate kinase 7
+Macromolecule #7: Tektin-3
+Macromolecule #8: Tektin-4
+Macromolecule #9: EF-hand domain-containing family member B
+Macromolecule #10: Tektin bundle-interacting protein 1
+Macromolecule #11: Tektin-5
+Macromolecule #12: Cilia- and flagella-associated protein 53
+Macromolecule #13: EF-hand domain-containing protein 1
+Macromolecule #14: EF-hand domain-containing family member C2
+Macromolecule #15: Protein FAM166A
+Macromolecule #16: Cilia- and flagella-associated protein 95
+Macromolecule #17: Protein FAM166C
+Macromolecule #18: Cilia- and flagella-associated protein 107
+Macromolecule #19: Dual specificity phosphatase 21
+Macromolecule #20: Cilia- and flagella-associated protein 161
+Macromolecule #21: Coiled-coil domain-containing protein 105
+Macromolecule #22: Enkurin
+Macromolecule #23: Piercer of microtubule wall 1 protein
+Macromolecule #24: Testis-expressed protein 43
+Macromolecule #25: Piercer of microtubule wall 2 protein
+Macromolecule #26: Cilia- and flagella-associated protein 276
+Macromolecule #27: RIB43A-like with coiled-coils protein 2
+Macromolecule #28: Protein Flattop
+Macromolecule #29: Cilia- and flagella-associated protein 52
+Macromolecule #30: EF-hand calcium-binding domain-containing protein 6
+Macromolecule #31: Cilia and flagella-associated protein 77
+Macromolecule #32: Sperm-associated antigen 8
+Macromolecule #33: Cilia- and flagella-associated protein 45
+Macromolecule #34: Cilia- and flagella-associated protein 20
+Macromolecule #35: Parkin coregulated gene protein homolog
+Macromolecule #36: Cilia- and flagella-associated protein 210
+Macromolecule #37: Sperm acrosome-associated protein 9
+Macromolecule #38: Cilia- and flagella-associated protein 141
+Macromolecule #39: GUANOSINE-5'-TRIPHOSPHATE
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | subtomogram averaging |
Aggregation state | cell |
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Sample preparation
Buffer | pH: 7 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 3.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 5.0 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Final reconstruction | Applied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 6.5 Å / Resolution method: FSC 0.143 CUT-OFF / Number subtomograms used: 17450 |
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Extraction | Number tomograms: 689 / Number images used: 17450 |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |