REL PDBe PDBe PDBe 2009-09-20 2009-11-03 2010-11-18 2010-11-18 Cryo-EM structure of the mammalian Sec61 complex bound to the actively translating wheat germ 80S ribosome Becker T Mandon E Bhushan S Jarasch A Armache JP Funes S Jossinet F Gumbart J Mielke T Berninghausen O Schulten K Westhof E Gilmore R Beckmann R Ribosome, protein exit tunnel, cotranslational protein translocation, protein conducting channel, signal sequence Becker T Bhushan S Jarasch A Armache JP Funes S Jossinet F Gumbart J Mielke T Berninghausen O Schulten K Westhof E Gilmore R Mandon EC Beckmann R Structure of monomeric yeast and mammalian Sec61 complexes interacting with the translating ribosome. SCIENCE 326 1369 1373 2009 19933108 doi:10.1126/science.1178535 2wwb FULLOVERLAP Actively translating wheat germ (O. sativa) 80S ribosome programmed with a nascent polypeptide chain containing a P-site tRNA and the type I signal anchor sequence of DPAP-B (Dipeptidylaminopeptidase B) bound to the mammalian (Canis familiaris) Sec61 complex. Actively translating wheat germ (O. sativa) 80S ribosome programmed with a nascent polypeptide chain containing a P-site tRNA and the type I signal anchor sequence of DPAP-B (Dipeptidylaminopeptidase B) bound to the mammalian (Canis familiaris) Sec61 complex.
80S ribosomes and the digitonin solubilized Sec61 complex were reconstituted in vitro by adding 3 pmol of ribosome and Ssh1 complex in 10 fold molar excess
80S Ribosome bound to one copy of the heterotrimeric Sec61 complex 2 4.2 4.2 Known for 80S ribosomes Wheat germ (Triticum aestivum) 80 ribosome 4.2 4.2 ribosome-eukaryote: ALL Mammalian Sec61 complex Canis lupus familiaris Dog Pancreas Endoplasmic reticulum (ER) membrane Endoplasmic reticulum 0.07 0.07 1 Heterotrimer false singleParticle particle 0.02 7.5
30 mM HEPES/KOH, pH 7.5 180 mM KOAc, 10 mM Mg(OAc)2, 1 mM DTT,3.5 % (w/v) glycerol 0.3 % (w/v) digitonin
 NEGATIVE
cryo-EM
Quantifoil grids (3/3) with 2 nm carbon on top
 ETHANE 95 OTHER
Vitrification instrument: Vitrobot
Blot for 10 seconds before plunging, use 2 layers of filter paper FEI POLARA 300 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.26 1.25 4.7 39000.0 38000.0 OTHER 84 Objective lens astgnatism was corrected at 100000 times magnification KODAK SO-163 FILM PRIMESCAN 4.76 155 25
Scanned at 5334 dpi
1.2 16. FEI Polara cartridge system 0 0
Particles were selected using the program SIGNATURE and visually inspected The entire dataset (321000 particles) was sorted for presence of P-site tRNA and presence of ligand.
Defocus group volumes
 C1 OTHER 6.48 FSC 0.5 CUT-OFF SPIDER
Final map was filtered between 7-8 Angstroms for better visualization of the Sec61 complex
221445
SPIDER
 emd_1652.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 368 368 368 -184 -184 -183 368 368 368 455.4 455.4 455.4 90 90 90 Y X Z -0.67112 1.70576 0.00494237 0.100105 1.2375 1.2375 1.2375 0.2 EMDB The map represents an actively translating wheat germ ribosome with P-site tRNA and a nascent peptide containing the signal anchor sequence of DPAP-B (Dipeptidylaminopeptidase B) bound to the mammalian (Canis familiaris) Sec61 complex.
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