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	A molecular network of conserved factors keeps ribosomes dormant in the egg.
Journal, issue, pages	Nature, Vol. 613, Issue 7945, Page 712-720, Year 2023
Publish date	Jan 18, 2023
Authors	Friederike Leesch / Laura Lorenzo-Orts / Carina Pribitzer / Irina Grishkovskaya / Josef Roehsner / Anastasia Chugunova / Manuel Matzinger / Elisabeth Roitinger / Katarina Belačić / Susanne Kandolf / Tzi-Yang Lin / Karl Mechtler / Anton Meinhart / David Haselbach / Andrea Pauli /
PubMed Abstract	Ribosomes are produced in large quantities during oogenesis and are stored in the egg. However, the egg and early embryo are translationally repressed. Here, using mass spectrometry and cryo-electron ...Ribosomes are produced in large quantities during oogenesis and are stored in the egg. However, the egg and early embryo are translationally repressed. Here, using mass spectrometry and cryo-electron microscopy analyses of ribosomes isolated from zebrafish (Danio rerio) and Xenopus laevis eggs and embryos, we provide molecular evidence that ribosomes transition from a dormant state to an active state during the first hours of embryogenesis. Dormant ribosomes are associated with four conserved factors that form two modules, consisting of Habp4-eEF2 and death associated protein 1b (Dap1b) or Dap in complex with eIF5a. Both modules occupy functionally important sites and act together to stabilize ribosomes and repress translation. Dap1b (also known as Dapl1 in mammals) is a newly discovered translational inhibitor that stably inserts into the polypeptide exit tunnel. Addition of recombinant zebrafish Dap1b protein is sufficient to block translation and reconstitute the dormant egg ribosome state in a mammalian translation extract in vitro. Thus, a developmentally programmed, conserved ribosome state has a key role in ribosome storage and translational repression in the egg.
External links	Nature / PubMed:36653451 / PubMed Central
Methods	EM (single particle)
Resolution	2.3 - 3.2 Å
Structure data	13111 7oya EMDB-13111, PDB-7oya: Cryo-EM structure of the 1 hpf zebrafish embryo 80S ribosome Method: EM (single particle) / Resolution: 3.2 Å 13112 7oyb EMDB-13112, PDB-7oyb: Cryo-EM structure of the 6 hpf zebrafish embryo 80S ribosome Method: EM (single particle) / Resolution: 2.4 Å 13113 7oyc EMDB-13113, PDB-7oyc: Cryo-EM structure of the Xenopus egg 80S ribosome Method: EM (single particle) / Resolution: 2.4 Å 13114 7oyd EMDB-13114, PDB-7oyd: Cryo-EM structure of a rabbit 80S ribosome with zebrafish Dap1b Method: EM (single particle) / Resolution: 2.3 Å EMDB-13115: Cryo-EM structure of the 80S rabbit ribosome from reticulocyte lysate Method: EM (single particle) / Resolution: 2.3 Å EMDB-14588: Cryo-EM map of the Xenopus egg dormant ribosome Method: EM (single particle) / Resolution: 2.97 Å
Chemicals	ChemComp-ZN: Unknown entry ChemComp-MG: Unknown entry
Source	danio rerio (zebrafish) Zebrafish, Brachydanio rerio xenopus laevis (African clawed frog) African clawed frog (African clawed frog) oryctolagus cuniculus (rabbit)
Keywords	RIBOSOME / translation / embryo / zebrafish / maternal / Dap1 / Dap1b / Habp4 / Eif5a / Eef2b / Eef2 / DapL1 / egg / Xenopus