REL RCSB RCSB RCSB 2013-11-08 2013-12-25 2014-01-01 2014-02-19 EttA-bound E. coli 70S ribosome complex containing P-site tRNA and A-site tRNA Chen B Boel G Hashem Y Ning W Fei J Wang C Gonzalez RL Hunt JF Frank J protein translation regulation, ABC-F protein family, ribosome, cryo-EM, single-molecule FRET, YjjK Chen B Boel G Hashem Y Ning W Fei J Wang C Gonzalez Jr RL Hunt JF Frank J EttA regulates translation by binding to the ribosomal E site and restricting ribosome-tRNA dynamics. NAT.STRUCT.MOL.BIOL. 21 152 159 2014 24389465 doi:10.1038/nsmb.2741 Boel G Smith PC Ning W Englander MT Chen B Hashem Y Testa AJ Fischer JJ Wieden HJ Frank J Gonzalez Jr RL Hunt JF The ABC-F protein EttA gates ribosome entry into the translation elongation cycle. NAT.STRUCT.MOL.BIOL. 21 143 151 2014 24389466 doi:10.1038/nsmb.2740 EMD-5785 FULLOVERLAP EMD-5786 FULLOVERLAP EMD-5841 FULLOVERLAP EMD-5842 FULLOVERLAP EMD-5843 FULLOVERLAP 3j5s FULLOVERLAP E. coli 70S ribosome complex 70S-EttA_EQ2-tRNAfMet-tRNAPhe E. coli 70S ribosome complex 70S-EttA_EQ2-tRNAfMet-tRNAPhe 4 70S ribosome GO:0042255 false Escherichia coli MRE600 2.7 ribosome-prokaryote: ALL Energy-dependent Translational Throttle A (EttA) Escherichia coli K-12 MG1655 0.06 true Escherichia coli K-12 MG1655 pBAD P0A9W3 tRNAfMet Escherichia coli TRANSFER DOUBLE HELIX false tRNAPhe Escherichia coli TRANSFER DOUBLE HELIX false singleParticle particle 1.2 6.9
50 mM Tris acetate, 100 mM KCl, 5 mM NH4OAc, 3.5 mM Mg(OAc)2, 0.5 mM Ca(OAc)2, 0.1 mM EDTA, 1 mM spermidine, 5 mM putrescine, 6 mM 2-mercaptoethanol, 0.5 mM Mg-ATP
Quantifoil R2/4 300 mesh Cu EM grid, coated with thin carbon film, glow discharged in H2/O2
 ETHANE 100 80 FEI VITROBOT MARK IV Wait time 30 sec, blot time 8 sec, at 4 degrees Celsius FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.0 1.2 3.5 80000.0 110637.0 GATAN LIQUID NITROGEN 80
Low dose
2011-04-05 GATAN ULTRASCAN 4000 (4k x 4k) 574 17
Used the automatic image collection program Leginon
 Single tilt cryoholder, liquid Nitrogen cooled FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.0 1.2 3.5 80000.0 110637.0 GATAN LIQUID NITROGEN 80
Low dose
2011-06-06 GATAN ULTRASCAN 4000 (4k x 4k) 1816 17
Used the automatic image collection program Leginon
 Single tilt cryoholder, liquid Nitrogen cooled
The particles were selected via automatic particle picking followed by visual verification. 3D classification and refinement were performed using RELION.
Each micrograph
 7.5 OTHER SPIDER, RELION
Subset after RELION 3D classification
39316 emd_5784.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 134 134 134 -67 -67 -66 134 134 134 363.3544 363.3544 363.3544 90.0 90.0 90.0 X Y Z -150.118362429999991 338.728607179999983 3.62113333 39.947555540000003 2.7116 2.7116 2.7116 80.0 AUTHOR Reconstruction of E. coli 70S ribosome complex containing A-site tRNAPhe, P-site tRNAfMet, and EttA-EQ2 mutant protein
::::EMDATABANK.org::::EMD-5784::::
 3R8O FLEXIBLE FIT NAMD
Protocol: Molecular dynamics flexible fitting (Trabuco et al. Flexible Fitting of Atomic Structures into Electron Microscopy Maps Using Molecular Dynamics. Structure (2008) vol. 16 (5) pp. 673-683)
Cross-correlation coefficient REAL 3R8T FLEXIBLE FIT NAMD
Protocol: Molecular dynamics flexible fitting
Cross-correlation coefficient REAL 2WDG V Y FLEXIBLE FIT NAMD
Protocol: Molecular dynamics flexible fitting
Cross-correlation coefficient REAL 4FIN FLEXIBLE FIT NAMD
Matched the apo-EttA model (derived from PDB ID 4FIN) to CFTR NBD1 (PDB ID 2PZE) to model the ATP-bound form of EttA. Protocol: Molecular dynamics flexible fitting
Cross-correlation coefficient REAL
emd_5784.jpg