REL RCSB RCSB RCSB 2011-12-02 2012-01-26 2012-02-16 2014-07-23 New mRNA-tRNA translocation intermediates revealed by cryoEM: Class 3 (unrotated 70S ribosome with P-site tRNA) Agirrezabala X Liao HY Schreiner E Fu J Ortiz-Meoz RF Schulten K Green R Frank J ribosome, 70S, unrotated, intermediates, translocation, tRNA Agirrezabala X Liao HY Schreiner E Fu J Ortiz-Meoz RF Schulten K Green R Frank J Structural characterization of mRNA-tRNA translocation intermediates. PROC.NAT.ACAD.SCI.USA 109 6094 6099 2012 22467828 doi:10.1073/pnas.1201288109 4v6s FULLOVERLAP Trp-tRNA-EFTu-GDP-kir-70S ribosome Trp-tRNA-EFTu-GDP-kir-70S ribosome monomeric 2 2.8 2.8 70S ribosome false Escherichia coli ribosome-prokaryote: ALL singleParticle particle 0.03 7.5
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
200 mesh
 NITROGEN 90 80 OTHER
Vitrification instrument: Vitrobot
blot for 3 seconds FEI TECNAI F30 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.26 1.2 4.0 59000.0 58269.0 OTHER 80.7 80.7 80.7 objective corrected at 100,000 times magnification no tilt no filter
automated data collection system AutoEMation (CCD mag. 100000x)
2007-05-01 TVIPS TEMCAM-F415 (4k x 4k) 25 cartridge 0 0
defocus groups, Wiener filter
 13.1 FSC 0.5 CUT-OFF XMIPP, SPIDER
Classification using ML3D
21000 emd_5360.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 250 250 250 -124 -124 -124 250 250 250 375.0 375.0 375.0 90.0 90.0 90.0 X Y Z -0.45643148 1.44321132 0.02828065 0.18209335 1.5 1.5 1.5 0.1 AUTHOR Cryo revealed unrotated ribosome with P tRNA (Class 3).
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 2I2U FLEXIBLE FIT MDFF
Protocol: Molecular Dynamics based flexible fitting
RMSD, cross correlation REAL 2I2V FLEXIBLE FIT MDFF
Protocol: Molecular Dynamics based flexible fitting
RMSD, cross correlation REAL