Summary for 9QF5
| Entry DOI | 10.2210/pdb9qf5/pdb |
| EMDB information | 53099 |
| Descriptor | 16S rRNA, Small ribosomal subunit protein uS8, Small ribosomal subunit protein eS8, ... (65 entities in total) |
| Functional Keywords | rna modification, cryo-em, ribosome |
| Biological source | Pyrococcus furiosus More |
| Total number of polymer chains | 65 |
| Total formula weight | 2466834.60 |
| Authors | Matzov, D.,Georgeson, J.,Westhof, E.,Schwartz, S.,Shalev-Benami, M. (deposition date: 2025-03-11, release date: 2025-11-05, Last modification date: 2025-12-10) |
| Primary citation | Garcia-Campos, M.A.,Georgeson, J.,Nir, R.,Reichelt, R.,Fluke, K.A.,Matzov, D.,Iyer, V.,Burkhart, B.W.,Lui, L.,Kustanovich, A.,Grunberger, F.,Thalalla-Gamage, S.,Howpay-Manage, S.A.,Gerovac, M.,Alexandre, N.,Nobe, Y.,Nowak, J.S.,Perera, M.,Apostle, A.,Fang, S.,Glatt, S.,Jona, G.,Ferreira-Cerca, S.,Vogel, J.,Taoka, M.,Meier, J.L.,Westhof, E.,Santangelo, T.J.,Grohmann, D.,Shalev-Benami, M.,Schwartz, S. Pan-modification profiling facilitates a cross-evolutionary dissection of the thermoregulated ribosomal epitranscriptome. Cell, 188:6825-, 2025 Cited by PubMed Abstract: Ribosomal RNA (rRNA) constitutes the core of ribosomes and is extensively chemically modified. Technical challenges have precluded systematically dissecting rRNA modifications and their dynamics. We develop Pan-Mod-seq, permitting inference of 16 distinct modifications across dozens of samples in parallel. We applied Pan-Mod-seq to RNA from 14 species spanning all domains of life, cultured under highly diverse conditions. While dynamic modifications are rare in mesophiles, in extreme hyperthermophiles, ∼50% of modifications are dynamic. We dissect the biogenesis and function of a conserved module of tandem mC-acC modifications, co-induced at high temperatures, via enzymes intrinsically regulated by temperature and required for growth at higher temperatures. Cryo-electron microscopy (cryo-EM) structures of ribosomes from wild-type (WT) and enzyme-deficient archaea reveal recurrent molecular interactions through which they confer structural stability, and biophysical studies demonstrate their synergistic thermostabilizing role. Our findings systematically dissect rRNA modification plasticity and pave the way for surveying the rRNA epitranscriptome in health and disease. PubMed: 41130207DOI: 10.1016/j.cell.2025.09.014 PDB entries with the same primary citation |
| Experimental method | ELECTRON MICROSCOPY (2.84 Å) |
Structure validation
Download full validation report
