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	Cryo-EM structure of ribosome from pathogenic protozoa Entamoeba histolytica reveals unique features of its architecture.
Journal, issue, pages	Nat Commun, Vol. 16, Issue 1, Page 7758, Year 2025
Publish date	Aug 20, 2025
Authors	Shivani Sharma / Shalini Mishra / Samudrala Gourinath / Prem S Kaushal /
PubMed Abstract	Entamoeba histolytica, an anaerobic protozoan parasite, is the causative agent of amoebiasis, bloody diarrhea, and liver abscesses in humans. Amoebiasis is more predominant in tropical areas with ...Entamoeba histolytica, an anaerobic protozoan parasite, is the causative agent of amoebiasis, bloody diarrhea, and liver abscesses in humans. Amoebiasis is more predominant in tropical areas with poor sanitation conditions, and it remains the fourth leading cause of death due to a protozoan infection. E. histolytica life cycle spans between an infective 'cyst stage' and an active disease-causing 'trophozoite stage'. We have isolated ribosomes from the trophozoite stage of E. histolytica. Here, we report single particle cryo-EM structures of the 53S ribosome large subunit (LSU), and 75S associated ribosomes, with P-tRNA, A/P and P/E tRNAs, and with paromomycin antibiotic, at 2.8 Å to 3.4 Å resolution. The E. histolytica possesses a reduced ribosome with a conserved core, and the periphery evolved with species-specific unique features. The most notable features are the presence of the rRNA triple helix near the peptide exit tunnel, the expansion segment H88ES102 near the exit site on LSU, and unique insertions in r-proteins. Furthermore, the 75S ribosome paromomycin complex structure provides the atomic details of its interactions. These structures provide insights into the evolutionary adaptation of the E. histolytica translational machinery and may be explored further for amoebicidal therapeutic intervention.
External links	Nat Commun / PubMed:40835601 / PubMed Central
Methods	EM (single particle)
Resolution	2.8 - 3.4 Å
Structure data	64694 9v1i EMDB-64694, PDB-9v1i: Cryo- EM structure of ribosomal large subunit (LSU) from Entamoeba histolytica at 2.8 angstrom resolution Method: EM (single particle) / Resolution: 2.8 Å 64695 9v1j EMDB-64695, PDB-9v1j: Cryo- EM structure of small subunit (body) of 75S ribosome with P- tRNA from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.1 Å 64696 9v1k EMDB-64696, PDB-9v1k: Cryo- EM structure of small subunit (head) of 75S ribosome with P- tRNA from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.4 Å 64697 9v1l EMDB-64697, PDB-9v1l: Cryo- EM structure of large subunit (LSU) of 75S ribosome with P- tRNA from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.0 Å 64713 9v21 EMDB-64713, PDB-9v21: Cryo- EM structure of 75S ribosome with P- tRNA from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.0 Å 64716 9v24 EMDB-64716, PDB-9v24: Cryo- EM structure of 75S ribosome with A/P- & P/E- tRNAs from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.1 Å 64717 9v25 EMDB-64717, PDB-9v25: Cryo- EM structure of large subunit (LSU) of 75S ribosome with A/P- & P/E- tRNAs from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.0 Å 64718 9v26 EMDB-64718, PDB-9v26: Cryo- EM structure of 75S ribosome with A/P- & P/E- tRNAs from Entamoeba histolytica bound to antibiotic paromomycin Method: EM (single particle) / Resolution: 3.1 Å 64719 9v27 EMDB-64719, PDB-9v27: Cryo- EM structure of small subunit (body) of 75S ribosome with A/P- & P/E- tRNAs from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.21 Å 64720 9v28 EMDB-64720, PDB-9v28: Cryo- EM structure of small subunit (head) of 75S ribosome with A/P- & P/E- tRNAs from Entamoeba histolytica Method: EM (single particle) / Resolution: 3.4 Å 64721 9v29 EMDB-64721, PDB-9v29: Cryo- EM structure of small subunit (body) of 75S ribosome with A/P- & P/E- tRNAs from Entamoeba histolytica bound to antibiotic paromomycin Method: EM (single particle) / Resolution: 3.2 Å
Chemicals	ChemComp-PAR: PAROMOMYCIN / medication*YM
Source	entamoeba histolytica hm-1:imss (eukaryote)
Keywords	RIBOSOME / LSU / Entamoeba histolytica / 53S / SSU-body / SSU-head / P-tRNA / LSU with P-tRNA CCA end / 75S Ribosome / A/P-tRNA / P/E-tRNA / Large Subunit of Ribosome / 75S Ribosome-PAR complex / SSU-body of 75S Ribosome / SSU-head of 75S Ribosome / SSU-body of 75S Ribosome-PAR complex