4v4b | pdb_00004v4b

Structure of the ribosomal 80S-eEF2-sordarin complex from yeast obtained by docking atomic models for RNA and protein components into a 11.7 A cryo-EM map.

spinqualitylabelsall models 4v4b, resolution 11.70Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 4v4b is a 47 chain structure with sequence from Saccharomyces cerevisiae. This structure supersedes the now removed PDB entries and 1s1i. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Related: 1s1i, 1s1h, 1k5x, 1k5y, 1mms, 1mzp, 1ffk, 1fjf, 1fka, 1gix, 1giy, 1nou Resources: FirstGlance, OCA, RCSB, PDBsum Function [RL4A_YEAST] Participates in the regulation of the accumulation of its own mRNA. [RS15_YEAST] Involved in the nuclear export of the small ribosomal subunit. Has a role in the late stage of the assembly of pre-40S particles within the nucleus and controls their export to the cytoplasm. [RS9B_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly. [RL5_YEAST] Binds 5S RNA and is required for 60S subunit assembly. [RS14A_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly. [RL4B_YEAST] Participates in the regulation of the accumulation of its own mRNA. [RS2_YEAST] Important in the assembly and function of the 40S ribosomal subunit. Mutations in this protein affects the control of translational fidelity. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly. [RL25_YEAST] This protein binds to a specific region on the 26S rRNA. [RSSA1_YEAST] Required for the assembly and/or stability of the 40S ribosomal subunit. Required for the processing of the 20S rRNA-precursor to mature 18S rRNA in a late step of the maturation of 40S ribosomal subunits. [RS19A_YEAST] Required for proper maturation of the small (40S) ribosomal subunit. Binds to 40s pre-ribosomal particles, probably required after association of NOC4 but before association of ENP1, TSR1 and RIO2 with 20/21S pre-rRNA. [RS9A_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly. Publication Abstract from PubMed An 11.7-A-resolution cryo-EM map of the yeast 80S.eEF2 complex in the presence of the antibiotic sordarin was interpreted in molecular terms, revealing large conformational changes within eEF2 and the 80S ribosome, including a rearrangement of the functionally important ribosomal intersubunit bridges. Sordarin positions domain III of eEF2 so that it can interact with the sarcin-ricin loop of 25S rRNA and protein rpS23 (S12p). This particular conformation explains the inhibitory action of sordarin and suggests that eEF2 is stalled on the 80S ribosome in a conformation that has similarities with the GTPase activation state. A ratchet-like subunit rearrangement (RSR) occurs in the 80S.eEF2.sordarin complex that, in contrast to Escherichia coli 70S ribosomes, is also present in vacant 80S ribosomes. A model is suggested, according to which the RSR is part of a mechanism for moving the tRNAs during the translocation reaction. Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation.,Spahn CM, Gomez-Lorenzo MG, Grassucci RA, Jorgensen R, Andersen GR, Beckmann R, Penczek PA, Ballesta JP, Frank J EMBO J. 2004 Mar 10;23(5):1008-19. Epub 2004 Feb 19. PMID:14976550 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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