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A combined cryo-EM and molecular dynamics approach reveals the mechanism of ErmBL-mediated translation arrest.

Arenz S, Bock LV, Graf M, Innis CA, Beckmann R, Grubmüller H, Vaiana AC, Wilson DN.

Nat Commun. 2016 Jul 6;7:12026. doi: 10.1038/ncomms12026.


Combining structure probing data on RNA mutants with evolutionary information reveals RNA-binding interfaces.

Reinharz V, Ponty Y, Waldispühl J.

Nucleic Acids Res. 2016 Jun 20;44(11):e104. doi: 10.1093/nar/gkw217. Epub 2016 Apr 19.


Trifunctional cross-linker for mapping protein-protein interaction networks and comparing protein conformational states.

Tan D, Li Q, Zhang MJ, Liu C, Ma C, Zhang P, Ding YH, Fan SB, Tao L, Yang B, Li X, Ma S, Liu J, Feng B, Liu X, Wang HW, He SM, Gao N, Ye K, Dong MQ, Lei X.

Elife. 2016 Mar 8;5. pii: e12509. doi: 10.7554/eLife.12509.


Advances in the molecular dynamics flexible fitting method for cryo-EM modeling.

McGreevy R, Teo I, Singharoy A, Schulten K.

Methods. 2016 May 1;100:50-60. doi: 10.1016/j.ymeth.2016.01.009. Epub 2016 Jan 21.


Eukaryote-specific extensions in ribosomal proteins of the small subunit: Structure and function.

Ghosh A, Komar AA.

Translation (Austin). 2015 Feb 5;3(1):e999576. doi: 10.1080/21690731.2014.999576. eCollection 2015 Jan-Jun. Review.


Mechanisms of ribosome stalling by SecM at multiple elongation steps.

Zhang J, Pan X, Yan K, Sun S, Gao N, Sui SF.

Elife. 2015 Dec 14;4. pii: e09684. doi: 10.7554/eLife.09684.


Universal and domain-specific sequences in 23S-28S ribosomal RNA identified by computational phylogenetics.

Doris SM, Smith DR, Beamesderfer JN, Raphael BJ, Nathanson JA, Gerbi SA.

RNA. 2015 Oct;21(10):1719-30. doi: 10.1261/rna.051144.115. Epub 2015 Aug 17.


Structures of the scanning and engaged states of the mammalian SRP-ribosome complex.

Voorhees RM, Hegde RS.

Elife. 2015 Jul 9;4. doi: 10.7554/eLife.07975.


Exploiting translational stalling peptides in an effort to extend azithromycin interaction within the prokaryotic ribosome nascent peptide exit tunnel.

Washington AZ, Tapadar S, George A, Oyelere AK.

Bioorg Med Chem. 2015 Aug 15;23(16):5198-209. doi: 10.1016/j.bmc.2015.04.078. Epub 2015 May 6.


Cryo-EM: A Unique Tool for the Visualization of Macromolecular Complexity.

Nogales E, Scheres SH.

Mol Cell. 2015 May 21;58(4):677-89. doi: 10.1016/j.molcel.2015.02.019. Review.


Protein Synthesis with Ribosomes Selected for the Incorporation of β-Amino Acids.

Maini R, Chowdhury SR, Dedkova LM, Roy B, Daskalova SM, Paul R, Chen S, Hecht SM.

Biochemistry. 2015 Jun 16;54(23):3694-706. doi: 10.1021/acs.biochem.5b00389. Epub 2015 Jun 2.


The ribosome can discriminate the chirality of amino acids within its peptidyl-transferase center.

Englander MT, Avins JL, Fleisher RC, Liu B, Effraim PR, Wang J, Schulten K, Leyh TS, Gonzalez RL Jr, Cornish VW.

Proc Natl Acad Sci U S A. 2015 May 12;112(19):6038-43. doi: 10.1073/pnas.1424712112. Epub 2015 Apr 27.


Single-Particle Cryo-EM at Crystallographic Resolution.

Cheng Y.

Cell. 2015 Apr 23;161(3):450-7. doi: 10.1016/j.cell.2015.03.049. Review.


Structure of the Bacillus subtilis 70S ribosome reveals the basis for species-specific stalling.

Sohmen D, Chiba S, Shimokawa-Chiba N, Innis CA, Berninghausen O, Beckmann R, Ito K, Wilson DN.

Nat Commun. 2015 Apr 23;6:6941. doi: 10.1038/ncomms7941.


Parallel Structural Evolution of Mitochondrial Ribosomes and OXPHOS Complexes.

van der Sluis EO, Bauerschmitt H, Becker T, Mielke T, Frauenfeld J, Berninghausen O, Neupert W, Herrmann JM, Beckmann R.

Genome Biol Evol. 2015 Apr 9;7(5):1235-51. doi: 10.1093/gbe/evv061.


Ribosomes slide on lysine-encoding homopolymeric A stretches.

Koutmou KS, Schuller AP, Brunelle JL, Radhakrishnan A, Djuranovic S, Green R.

Elife. 2015 Feb 19;4. doi: 10.7554/eLife.05534.


Identification of novel Arabidopsis thaliana upstream open reading frames that control expression of the main coding sequences in a peptide sequence-dependent manner.

Ebina I, Takemoto-Tsutsumi M, Watanabe S, Koyama H, Endo Y, Kimata K, Igarashi T, Murakami K, Kudo R, Ohsumi A, Noh AL, Takahashi H, Naito S, Onouchi H.

Nucleic Acids Res. 2015 Feb 18;43(3):1562-76. doi: 10.1093/nar/gkv018. Epub 2015 Jan 23.


Structural insights into the function of a unique tandem GTPase EngA in bacterial ribosome assembly.

Zhang X, Yan K, Zhang Y, Li N, Ma C, Li Z, Zhang Y, Feng B, Liu J, Sun Y, Xu Y, Lei J, Gao N.

Nucleic Acids Res. 2014 Dec 1;42(21):13430-9. doi: 10.1093/nar/gku1135. Epub 2014 Nov 11.


GPU-accelerated analysis and visualization of large structures solved by molecular dynamics flexible fitting.

Stone JE, McGreevy R, Isralewitz B, Schulten K.

Faraday Discuss. 2014;169:265-83. doi: 10.1039/c4fd00005f. Epub 2014 Jun 30.


Macrolide-peptide conjugates as probes of the path of travel of the nascent peptides through the ribosome.

Washington AZ, Benicewicz DB, Canzoneri JC, Fagan CE, Mwakwari SC, Maehigashi T, Dunham CM, Oyelere AK.

ACS Chem Biol. 2014 Nov 21;9(11):2621-31. doi: 10.1021/cb5003224. Epub 2014 Sep 22.

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