Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Structural diversity of axonemes across mammalian motile cilia.
Journal, issue, pages	Nature, Vol. 637, Issue 8048, Page 1170-1177, Year 2025
Publish date	Jan 1, 2025
Authors	Miguel Ricardo Leung / Chen Sun / Jianwei Zeng / Jacob R Anderson / Qingwei Niu / Wei Huang / Willem E M Noteborn / Alan Brown / Tzviya Zeev-Ben-Mordehai / Rui Zhang /
PubMed Abstract	Reproduction, development and homeostasis depend on motile cilia, whose rhythmic beating is powered by a microtubule-based molecular machine called the axoneme. Although an atomic model of the ...Reproduction, development and homeostasis depend on motile cilia, whose rhythmic beating is powered by a microtubule-based molecular machine called the axoneme. Although an atomic model of the axoneme is available for the alga Chlamydomonas reinhardtii, structures of mammalian axonemes are incomplete. Furthermore, we do not fully understand how molecular structures of axonemes vary across motile-ciliated cell types in the body. Here we use cryoelectron microscopy, cryoelectron tomography and proteomics to resolve the 96-nm modular repeat of axonemal doublet microtubules (DMTs) from both sperm flagella and epithelial cilia of the oviduct, brain ventricles and respiratory tract. We find that sperm DMTs are the most specialized, with epithelial cilia having only minor differences across tissues. We build a model of the mammalian sperm DMT, defining the positions and interactions of 181 proteins including 34 newly identified proteins. We elucidate the composition of radial spoke 3 and uncover binding sites of kinases associated with regeneration of ATP and regulation of ciliary motility. We discover a sperm-specific, axoneme-tethered T-complex protein ring complex (TRiC) chaperone that may contribute to construction or maintenance of the long flagella of mammalian sperm. We resolve axonemal dyneins in their prestroke states, illuminating conformational changes that occur during ciliary movement. Our results illustrate how elements of chemical and mechanical regulation are embedded within the axoneme, providing valuable resources for understanding the aetiology of ciliopathy and infertility, and exemplifying the discovery power of modern structural biology.
External links	Nature / PubMed:39743588 / PubMed Central
Methods	EM (subtomogram averaging) / EM (single particle)
Resolution	3.4 - 12.96 Å
Structure data	EMDB-45677: 96-nm repeat of axonemal doublet microtubules from porcine oviduct cilia, subtomogram average segment 1 of 4 Method: EM (subtomogram averaging) / Resolution: 9.6 Å EMDB-45678: 96-nm repeat of axonemal doublet microtubules from porcine oviduct cilia, subtomogram average segment 2 of 4 Method: EM (subtomogram averaging) / Resolution: 9.4 Å EMDB-45679: 96-nm repeat of axonemal doublet microtubules from porcine oviduct cilia, subtomogram average segment 3 of 4 Method: EM (subtomogram averaging) / Resolution: 9.3 Å EMDB-45680: 96-nm repeat of axonemal doublet microtubules from porcine oviduct cilia, subtomogram average segment 4 of 4 Method: EM (subtomogram averaging) / Resolution: 10.0 Å EMDB-45683: Dynein motor inner dynein arm subform c (IDAc) from bovine Fallopian tube Method: EM (single particle) / Resolution: 7.92 Å EMDB-45684: Dynein motor inner dynein arm subform e (IDAe) from bovine Fallopian tube Method: EM (single particle) / Resolution: 8.82 Å EMDB-45685: Dynein motor inner dynein arm subform f (IDAf) from bovine Fallopian tube Method: EM (single particle) / Resolution: 8.79 Å EMDB-45686: The nexin-dynein regulatory complex (N-DRC) from bovine Fallopian tube, distal part Method: EM (single particle) / Resolution: 9.15 Å EMDB-45687: The nexin-dynein regulatory complex (N-DRC) from bovine Fallopian tube, base part Method: EM (single particle) / Resolution: 3.83 Å EMDB-45688: The Outer Dynein Arm (ODA) complex from bovine Fallopian tube Method: EM (single particle) / Resolution: 8.68 Å EMDB-45689: The Outer Dynein Arm-Docking Complex (ODA-DC) from bovine Fallopian tube Method: EM (single particle) / Resolution: 3.64 Å EMDB-45690: Dyneins in pre-state from bovine Fallopian tube (part 1) Method: EM (single particle) / Resolution: 7.8 Å EMDB-45691: Dyneins in pre-state from bovine Fallopian tube (part 2) Method: EM (single particle) / Resolution: 7.57 Å EMDB-45692: Radial Spoke 1 from bovine Fallopian tube, base and stalk Method: EM (single particle) / Resolution: 6.59 Å EMDB-45693: Radial Spoke 1 from bovine Fallopian tube, stalk and head Method: EM (single particle) / Resolution: 8.67 Å EMDB-45694: Radial Spoke 2 from bovine Fallopian tube, base and stalk Method: EM (single particle) / Resolution: 8.06 Å EMDB-45695: Radial Spoke 2 from bovine Fallopian tube, stalk and head Method: EM (single particle) / Resolution: 9.21 Å EMDB-45696: Radial Spoke 3 from bovine Fallopian tube, base and stalk Method: EM (single particle) / Resolution: 5.86 Å EMDB-45697: Radial Spoke 3 from bovine Fallopian tube, stalk and head Method: EM (single particle) / Resolution: 9.95 Å EMDB-45698: FAP206 from bovine Fallopian tube Method: EM (single particle) / Resolution: 3.4 Å EMDB-45699: Dynein motor inner dynein arm subform c (IDAc) from Porcine brain ventricles Method: EM (single particle) / Resolution: 7.8 Å EMDB-45713: Radial Spoke 3 from Pocine brain ventricles, stalk and head Method: EM (single particle) / Resolution: 9.72 Å EMDB-45714: The nexin-dynein regulatory complex (N-DRC) from human fallopian tube, distal part Method: EM (single particle) / Resolution: 6.77 Å EMDB-45715: The nexin-dynein regulatory complex (N-DRC) from human fallopian tube, base part Method: EM (single particle) / Resolution: 3.95 Å EMDB-45716: The Outer Dynein Arm (ODA) complex from human fallopian tube Method: EM (single particle) / Resolution: 7.8 Å EMDB-45717: The Outer Dynein Arm-Docking Complex (ODA-DC) from human fallopian tube Method: EM (single particle) / Resolution: 3.47 Å EMDB-45718: Dyneins in pre-state from human fallopian tube (part 1) Method: EM (single particle) / Resolution: 6.89 Å EMDB-45719: Dyneins in pre-state from human fallopian tube (part 2) Method: EM (single particle) / Resolution: 7.79 Å EMDB-45720: Radial Spoke 1 from human fallopian tube, base and stalk Method: EM (single particle) / Resolution: 6.74 Å EMDB-45721: Radial Spoke 1 from human fallopian tube, stalk and head Method: EM (single particle) / Resolution: 10.55 Å EMDB-45722: Radial Spoke 2 from human fallopian tube, base and stalk Method: EM (single particle) / Resolution: 7.54 Å EMDB-45723: Radial Spoke 2 from human fallopian tube, stalk and head Method: EM (single particle) / Resolution: 12.96 Å EMDB-45724: Radial Spoke 3 from human fallopian tube, base and stalk Method: EM (single particle) / Resolution: 6.52 Å EMDB-45725: Radial Spoke 3 from human fallopian tube, stalk and head Method: EM (single particle) / Resolution: 5.83 Å EMDB-45783: Composite map of bovine Fallopian tube cilia in 96nm repeat Method: EM (single particle) / Resolution: 3.52 Å EMDB-45784: Composite map of porcine brain ventricle cilia in 96nm repeat Method: EM (single particle) / Resolution: 3.65 Å EMDB-45785: Composite map of human Fallopian tube cilia in 96nm repeat Method: EM (single particle) / Resolution: 3.56 Å EMDB-45790: Dynein motor inner dynein arm subform f (IDAf) from human fallopian tube Method: EM (single particle) / Resolution: 9.26 Å 45801 9cpb EMDB-45801: Cryo-EM structure of bovine Fallopian tube cilia doublet microtubule (48-nm periodicity) PDB-9cpb: Atomic model of bovine Fallopian tube cilia doublet microtubule (48-nm periodicity) Method: EM (single particle) / Resolution: 3.52 Å 45802 9cpc EMDB-45802: Cryo-EM structure of porcine brain ventricles cilia doublet microtubule (48-nm periodicity) PDB-9cpc: Atomic model of porcine brain ventricles cilia doublet microtubule (48-nm periodicity) Method: EM (single particle) / Resolution: 3.65 Å EMDB-50866: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS1 base local refinement Method: EM (single particle) / Resolution: 3.9 Å EMDB-50867: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS1 stalk local refinement Method: EM (single particle) / Resolution: 5.1 Å EMDB-50868: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS1 head local refinement Method: EM (single particle) / Resolution: 3.9 Å EMDB-50869: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS2 base local refinement Method: EM (single particle) / Resolution: 4.1 Å EMDB-50870: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS2 stalk local refinement Method: EM (single particle) / Resolution: 4.5 Å EMDB-50871: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS2 head local refinement Method: EM (single particle) / Resolution: 3.8 Å EMDB-50872: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS3 base local refinement Method: EM (single particle) / Resolution: 4.3 Å EMDB-50873: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS3 stalk local refinement Method: EM (single particle) / Resolution: 4.1 Å EMDB-50874: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS3 head local refinement Method: EM (single particle) / Resolution: 4.6 Å EMDB-50875: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS1 barrel local refinement Method: EM (single particle) / Resolution: 7.4 Å EMDB-50876: 96-nm repeat of axonemal doublet microtubules from bovine sperm, RS2-RS3 bridge local refinement Method: EM (single particle) / Resolution: 7.0 Å EMDB-50877: 96-nm repeat of axonemal doublet microtubules from bovine sperm, N-DRC baseplate local refinement Method: EM (single particle) / Resolution: 3.5 Å EMDB-50878: 96-nm repeat of axonemal doublet microtubules from bovine sperm, N-DRC distal lobe local refinement Method: EM (single particle) / Resolution: 4.7 Å EMDB-50879: 96-nm repeat of axonemal doublet microtubules from bovine sperm, IDAab local refinement Method: EM (single particle) / Resolution: 3.9 Å EMDB-50880: 96-nm repeat of axonemal doublet microtubules from bovine sperm, IDAc local refinement Method: EM (single particle) / Resolution: 4.0 Å EMDB-50881: 96-nm repeat of axonemal doublet microtubules from bovine sperm, IDAe local refinement Method: EM (single particle) / Resolution: 7.2 Å EMDB-50882: 96-nm repeat of axonemal doublet microtubules from bovine sperm, IDAf IC/LC local refinement Method: EM (single particle) / Resolution: 8.2 Å EMDB-50883: 96-nm repeat of axonemal doublet microtubules from bovine sperm, IDAf motors pre-state local refinement part 1 Method: EM (single particle) / Resolution: 4.6 Å EMDB-50884: 96-nm repeat of axonemal doublet microtubules from bovine sperm, IDAf motors pre-state local refinement part 2 Method: EM (single particle) / Resolution: 5.9 Å EMDB-50885: 96-nm repeat of axonemal doublet microtubules from bovine sperm, ODA-DC local refinement Method: EM (single particle) / Resolution: 4.2 Å EMDB-50886: 96-nm repeat of axonemal doublet microtubules from bovine sperm, ODA local refinement Method: EM (single particle) / Resolution: 7.1 Å EMDB-50887: 96-nm repeat of axonemal doublet microtubules from bovine sperm, ARMH1 subcomplex local refinement Method: EM (single particle) / Resolution: 4.6 Å
Chemicals	ChemComp-GDP: GUANOSINE-5'-DIPHOSPHATE / GDP, energy-carrying moleculeYM ChemComp-MG: Unknown entry ChemComp-GTP: GUANOSINE-5'-TRIPHOSPHATE / GTP, energy-carrying moleculeYM
Source	sus scrofa (pig) bos taurus (cattle) Homo sapiens (human)
Keywords	STRUCTURAL PROTEIN / axoneme / cilia / microtubule / dynein / Fallopian tube / doublet microtubule (DMT) / brain ventricle