6EM4
State B architectural model (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes
Summary for 6EM4
| Entry DOI | 10.2210/pdb6em4/pdb |
| EMDB information | 3889 |
| Descriptor | Ribosome production factor 1, Eukaryotic translation initiation factor 6, 60S ribosomal protein L3, ... (37 entities in total) |
| Functional Keywords | large subunit biogenesis nucleolus, ribosome |
| Biological source | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) More |
| Cellular location | Nucleus, nucleolus : P38805 Q03532 P38779 P53261 P40693 Q04660 P35178 P53136 Q08235 P36049 P40007 Cytoplasm: Q12522 P14126 P10664 P38061 Q02326 P05744 P17076 P0CX84 O14455 P49166 P05737 Q12690 P36105 P05748 P26784 P05740 P0CX49 P0CX23 P0CX41 P05743 P53927 Q07915 Nucleus: P10962 |
| Total number of polymer chains | 37 |
| Total formula weight | 2258681.60 |
| Authors | Kater, L.,Cheng, J.,Barrio-Garcia, C.,Hurt, E.,Beckmann, R. (deposition date: 2017-10-01, release date: 2017-12-27, Last modification date: 2024-05-08) |
| Primary citation | Kater, L.,Thoms, M.,Barrio-Garcia, C.,Cheng, J.,Ismail, S.,Ahmed, Y.L.,Bange, G.,Kressler, D.,Berninghausen, O.,Sinning, I.,Hurt, E.,Beckmann, R. Visualizing the Assembly Pathway of Nucleolar Pre-60S Ribosomes. Cell, 171:1599-1610.e14, 2017 Cited by PubMed Abstract: Eukaryotic 60S ribosomal subunits are comprised of three rRNAs and ∼50 ribosomal proteins. The initial steps of their formation take place in the nucleolus, but, owing to a lack of structural information, this process is poorly understood. Using cryo-EM, we solved structures of early 60S biogenesis intermediates at 3.3 Å to 4.5 Å resolution, thereby providing insights into their sequential folding and assembly pathway. Besides revealing distinct immature rRNA conformations, we map 25 assembly factors in six different assembly states. Notably, the Nsa1-Rrp1-Rpf1-Mak16 module stabilizes the solvent side of the 60S subunit, and the Erb1-Ytm1-Nop7 complex organizes and connects through Erb1's meandering N-terminal extension, eight assembly factors, three ribosomal proteins, and three 25S rRNA domains. Our structural snapshots reveal the order of integration and compaction of the six major 60S domains within early nucleolar 60S particles developing stepwise from the solvent side around the exit tunnel to the central protuberance. PubMed: 29245012DOI: 10.1016/j.cell.2017.11.039 PDB entries with the same primary citation |
| Experimental method | ELECTRON MICROSCOPY (4.1 Å) |
Structure validation
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