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	Chromatin localization of nucleophosmin organizes ribosome biogenesis.
Journal, issue, pages	Mol Cell, Vol. 82, Issue 23, Page 4443-44457.e9, Year 2022
Publish date	Dec 1, 2022
Authors	Ilaria Ugolini / Silvija Bilokapic / Mylene Ferrolino / Josiah Teague / Yinxia Yan / Xuelin Zhou / Ashish Deshmukh / Michael White / Richard W Kriwacki / Mario Halic /
PubMed Abstract	Ribosome biogenesis takes place in the nucleolus, a nuclear membrane-less organelle. Although well studied, it remains unknown how nascent ribosomal subunits separate from the central chromatin ...Ribosome biogenesis takes place in the nucleolus, a nuclear membrane-less organelle. Although well studied, it remains unknown how nascent ribosomal subunits separate from the central chromatin compartment and move to the outer granular component, where maturation occurs. We find that the Schizosaccharomyces pombe nucleophosmin-like protein Fkbp39 localizes to rDNA sites encoding the 60S subunit rRNA, and this localization contributes to its specific association with nascent 60S subunits. Fkbp39 dissociates from chromatin to bind nascent 60S subunits, causing the latter to partition away from chromatin and from nascent 40S subunits through liquid-liquid phase separation. In vivo, Fkbp39 binding directs the translocation of nascent 60S subunits toward the nucleophosmin-rich granular component. This process increases the efficiency of 60S subunit assembly, facilitating the incorporation of 60S RNA domain III. Thus, chromatin localization determines the specificity of nucleophosmin in sorting nascent ribosomal subunits and coordinates their movement into specialized assembly compartments within the nucleolus.
External links	Mol Cell / PubMed:36423630 / PubMed Central
Methods	EM (single particle)
Resolution	2.8 - 3.8 Å
Structure data	24395 8eti EMDB-24395: Fkbp39 interacting nascent 60S subunit 1 PDB-8eti: Fkbp39 associated 60S nascent ribosome State 1 Method: EM (single particle) / Resolution: 3.7 Å 24396 8etj EMDB-24396: Fkbp39 associated nascent 60S class 2 PDB-8etj: Fkbp39 associated 60S nascent ribosome State 2 Method: EM (single particle) / Resolution: 3.2 Å 24397 8etg EMDB-24397: Fkbp39 associated nascent 60S class 3 PDB-8etg: Fkbp39 associated 60S nascent ribosome State 3 Method: EM (single particle) / Resolution: 3.4 Å 24398 8etc EMDB-24398: Fkbp39 associated nascent 60S class 4 PDB-8etc: Fkbp39 associated nascent 60S ribosome State 4 Method: EM (single particle) / Resolution: 3.1 Å 24409 8eth EMDB-24409: Ytm1 associated nascent 60S class 1B PDB-8eth: Ytm1 associated 60S nascent ribosome State 1B Method: EM (single particle) / Resolution: 3.8 Å 24410 8eup EMDB-24410: Ytm1 associated nascent 60S class 1A PDB-8eup: Ytm1 associated 60S nascent ribosome State 1A Method: EM (single particle) / Resolution: 3.1 Å 24411 8esq EMDB-24411: Ytm1 associated nascent 60S class 2 PDB-8esq: Ytm1 associated nascent 60S ribosome State 2 Method: EM (single particle) / Resolution: 2.8 Å 24412 8eug EMDB-24412: Ytm1 associated nascent 60S class 3 PDB-8eug: Ytm1 associated nascent 60S ribosome State 3 Method: EM (single particle) / Resolution: 2.8 Å 24420 8euy EMDB-24420: Ytm1 associated nascent 60S in fkbp39 deletion cells class 1A PDB-8euy: Ytm1 associated nascent 60S ribosome (-fkbp39) State 1A Method: EM (single particle) / Resolution: 3.0 Å 24421 8ev3 EMDB-24421: Ytm1 associated nascent 60S in fkbp39 deletion cells class 1B PDB-8ev3: Ytm1 associated 60S nascent ribosome (-Fkbp39) State 1B Method: EM (single particle) / Resolution: 3.0 Å 24422 8esr EMDB-24422: Ytm1 associated nascent 60S in fkbp39 deletion cells class 2 PDB-8esr: Ytm1 associated nascent 60S ribosome (-fkbp39) State 2 Method: EM (single particle) / Resolution: 3.2 Å 24423 8eui EMDB-24423: Ytm1 associated nascent 60S in fkbp39 deletion cells class 3 PDB-8eui: Ytm1 associated nascent 60S ribosome (-fkbp39) State 3 Method: EM (single particle) / Resolution: 3.1 Å
Chemicals	ChemComp-ZN: Unknown entry
Source	schizosaccharomyces pombe (fission yeast)
Keywords	RIBOSOME / Nucleophosmin / ribosome biogenesis / fkbp / 60S ribosome