7cpj | pdb_00007cpj

ycbZ-stalled 70S ribosome

spinqualitylabelsall models 7cpj, resolution 3.30Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 7cpj is a 10 chain structure with sequence from Escherichia coli, Escherichia coli 113303, Escherichia coli 2.3916, Escherichia coli 2362-75, Escherichia coli 907713, Escherichia coli H420, Escherichia coli K-12, Escherichia coli KTE112 and Escherichia coli UMEA 3718-1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: 1MG, 2MA, 2MG, 3TD, 4OC, 5MC, 5MU, 6MZ, G7M, H2U, ILE, MA6, OMC, OMG, OMU, PRO, PSU, UR3 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function C3TPN2_ECOLX Publication Abstract from PubMed Ribosome pauses are associated with various cotranslational events and determine the fate of mRNAs and proteins. Thus, the identification of precise pause sites across the transcriptome is desirable; however, the landscape of ribosome pauses in bacteria remains ambiguous. Here, we harness monosome and disome (or collided ribosome) profiling strategies to survey ribosome pause sites in Escherichia coli Compared to eukaryotes, ribosome collisions in bacteria showed remarkable differences: a low frequency of disomes at stop codons, collisions occurring immediately after 70S assembly on start codons, and shorter queues of ribosomes trailing upstream. The pause sites corresponded with the biochemical validation by integrated nascent chain profiling (iNP) to detect polypeptidyl-tRNA, an elongation intermediate. Moreover, the subset of those sites showed puromycin resistance, presenting slow peptidyl transfer. Among the identified sites, the ribosome pause at Asn586 of ycbZ was validated by biochemical reporter assay, tRNA sequencing (tRNA-seq), and cryo-electron microscopy (cryo-EM) experiments. Our results provide a useful resource for ribosome stalling sites in bacteria. The landscape of translational stall sites in bacteria revealed by monosome and disome profiling.,Fujita T, Yokoyama T, Shirouzu M, Taguchi H, Ito T, Iwasaki S RNA. 2022 Mar;28(3):290-302. doi: 10.1261/rna.078188.120. Epub 2021 Dec 14. PMID:34906996 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also Ribosome 3D structures

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