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	The nucleoplasmic phase of pre-40S formation prior to nuclear export.
Journal, issue, pages	Nucleic Acids Res, Vol. 50, Issue 20, Page 11924-11937, Year 2022
Publish date	Nov 11, 2022
Authors	Jingdong Cheng / Benjamin Lau / Matthias Thoms / Michael Ameismeier / Otto Berninghausen / Ed Hurt / Roland Beckmann /
PubMed Abstract	Biogenesis of the small ribosomal subunit in eukaryotes starts in the nucleolus with the formation of a 90S precursor and ends in the cytoplasm. Here, we elucidate the enigmatic structural ...Biogenesis of the small ribosomal subunit in eukaryotes starts in the nucleolus with the formation of a 90S precursor and ends in the cytoplasm. Here, we elucidate the enigmatic structural transitions of assembly intermediates from human and yeast cells during the nucleoplasmic maturation phase. After dissociation of all 90S factors, the 40S body adopts a close-to-mature conformation, whereas the 3' major domain, later forming the 40S head, remains entirely immature. A first coordination is facilitated by the assembly factors TSR1 and BUD23-TRMT112, followed by re-positioning of RRP12 that is already recruited early to the 90S for further head rearrangements. Eventually, the uS2 cluster, CK1 (Hrr25 in yeast) and the export factor SLX9 associate with the pre-40S to provide export competence. These exemplary findings reveal the evolutionary conserved mechanism of how yeast and humans assemble the 40S ribosomal subunit, but reveal also a few minor differences.
External links	Nucleic Acids Res / PubMed:36321656 / PubMed Central
Methods	EM (single particle)
Resolution	2.8 - 7.4 Å
Structure data	32792 7wtn EMDB-32792, PDB-7wtn: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-1 (with Rps2) Method: EM (single particle) / Resolution: 3.4 Å 32793 7wto EMDB-32793, PDB-7wto: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-1 (without Rps2) Method: EM (single particle) / Resolution: 3.5 Å 32794 7wtp EMDB-32794, PDB-7wtp: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-2 (with Rps2) Method: EM (single particle) / Resolution: 3.8 Å 32795 7wtq EMDB-32795, PDB-7wtq: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-2 (without Rps2) Method: EM (single particle) / Resolution: 3.7 Å 32796 7wtr EMDB-32796, PDB-7wtr: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-3 Method: EM (single particle) / Resolution: 3.5 Å EMDB-32797: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Rrp12-A Method: EM (single particle) / Resolution: 4.0 Å EMDB-32798: Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Rio2-C Method: EM (single particle) / Resolution: 4.8 Å 32799 7wts EMDB-32799, PDB-7wts: Cryo-EM structure of a human pre-40S ribosomal subunit - State UTP14 Method: EM (single particle) / Resolution: 3.2 Å 32800 7wtt EMDB-32800, PDB-7wtt: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (with CK1) Method: EM (single particle) / Resolution: 3.1 Å 32801 7wtu EMDB-32801, PDB-7wtu: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1) Method: EM (single particle) / Resolution: 3.0 Å 32802 7wtv EMDB-32802, PDB-7wtv: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A2 Method: EM (single particle) / Resolution: 3.5 Å 32803 7wtw EMDB-32803, PDB-7wtw: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A3 Method: EM (single particle) / Resolution: 3.2 Å 32804 7wtx EMDB-32804, PDB-7wtx: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B1 Method: EM (single particle) / Resolution: 3.1 Å 32806 7wtz EMDB-32806, PDB-7wtz: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2 Method: EM (single particle) / Resolution: 3.0 Å 32807 7wu0 EMDB-32807, PDB-7wu0: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B3 Method: EM (single particle) / Resolution: 3.3 Å EMDB-32808: Cryo-EM structure of a human pre-40S ribosomal subunit - State RIOK2-D2 Method: EM (single particle) / Resolution: 7.4 Å EMDB-32809: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (combined together, COMPOSITE MAP) Method: EM (single particle) / Resolution: 2.8 Å EMDB-32810: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (with CK1, COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.1 Å EMDB-32811: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1, COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.0 Å EMDB-32812: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A2 (COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.5 Å EMDB-32813: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A3 (COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.2 Å EMDB-32814: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B1 (COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.1 Å EMDB-32815: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2 (COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.1 Å EMDB-32816: Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B3 (COMPOSITE MAP) Method: EM (single particle) / Resolution: 3.3 Å
Chemicals	ChemComp-ZN: Unknown entry ChemComp-SAH: S-ADENOSYL-L-HOMOCYSTEINE
Source	saccharomyces cerevisiae (brewer's yeast) homo sapiens (human)
Keywords	RIBOSOME / ribosome biogenesis / 40S ribosome