Selected publications

  • Davis JH*, Tan YZ*, Carragher B, Potter CS, Lyumkis D, Williamson JR. Modular assembly of the bacterial large ribosomal subunit. Cell 2016. 167(6):1610-1622.
    • This work highlights the capabilities of the mass spectrometry and electron microscopy tools we developed, and led to significant advances in understanding this process. For example, we found that (i) the order of r-protein association is highly flexible and can be ‘re-routed’, (ii) limitation of a single r-protein has long-range structural effects, (iii) assembly occurs through the coordinated and cooperative folding of large structural ‘blocks’, (iv) subunit assembly is initiated on the solvent face of the particle and can proceed along three parallel pathways, and (v) RNA misfolding events are common. Also, we made some movies of putative assembly pathways using the (13!!) cryo-EM structures we determined...see below.


  • Davis JH, Williamson JR. Structure and dynamics of bacterial ribosome biogenesis. Philosophical Transactions of the Royal Society B 2017. 10.1098/rstb.2016.0181.
  • Tan YZ, Baldwin PR, Davis JH, Williamson JR, Potter CS, Carragher B, Lyumkis D. Single-Particle CryoEM Analysis: Addressing Preferred Orientation through Tilting. Nature Methods 2017. 14(8):793-796.
  • Stokes JM, Davis JH, Mangat CS, Williamson JR, Britton RA. Discovery of a small molecule that inhibits bacterial ribosome biogenesis. eLife 2014. 18(3) e03574.
  • Jomaa A*, Jain N*, Davis JH*, Williamson JR, Britton RA, Ortega J. Functional domains of the 50S subunit mature late in the assembly process. Nucleic Acids Research, 2014. 42(5):3419-35.

Full publication list

  • Tan YZ, Baldwin PR, Davis JH, Williamson JR, Potter CS, Carragher B, Lyumkis D. Single-Particle CryoEM Analysis: Addressing Preferred Orientation through Tilting. Nature Methods 2017. 14(8):793-796.
  • Davis JH*, Tan YZ*, Carragher B, Potter CS, Lyumkis D, Williamson JR. Modular assembly of the bacterial large ribosomal subunit. Cell 2016. 167(6):1610-1622.
  • Davis JH, Williamson JR. Structure and dynamics of bacterial ribosome biogenesis [review]. Philosophical Transactions of the Royal Society B 2017. 10.1098/rstb.2016.0181.
  • Ni X, Davis JH, Jain N, Razi A, Benlekbir S, McArthur AG, Rubinstein JL, Britton RA, Williamson JR, Ortega J. YphC and YsxC GTPases assist the maturation of the central protuberance, GTPase associated region, and functional cure of the 50S ribosomal subunit. Nucleic Acids Research. 2016. 44(17):8442-55.
  • Thurlow B, Davis JH, Leong V, Moraes T, Williamson JR, Ortega J. Binding properties of YjeQ (RsgA), RbfA, RimM, and Era to assembly intermediates of the 30S subunit. Nucleic Acids Research. 2016 44(20):9918-8832.
  • Gulati M*, Jain N*, Davis JH, Williamson JR, Britton RA. Functional interaction between ribosomal protein L6 and RbgA during ribosome assembly. PLOS Genetics. 2014. 10(10) e1004694.
  • Stokes JM, Davis JH, Mangat CS, Williamson JR, Britton RA. Discovery of a small molecule that inhibits bacterial ribosome biogenesis. eLife 2014. 18(3) e03574.
  • Jomaa A*, Jain N*, Davis JH*, Williamson JR, Britton RA, Ortega J. Functional domains of the 50S subunit mature late in the assembly process. Nucleic Acids Research, 2014. 42(5):3419-35.
  • Chen SS, Sperling E, Silverman JM, Davis JH, Williamson JR. Measuring the dynamics of E. coli ribosome biogenesis using pulse-labeling and quantitative mass spectrometry. Mol. Biosystems. 2012. 8(12):3325-34.
  • Davis JH, Baker TA, Sauer RT. Small-molecule Control of Protein Degradation Using Split Adaptors. ACS Chemical Biology. 2011 6(11):1205-13.
  • Davis JH, Rubin, AJ, Sauer RT. Design, Construction, and Characterization of a Set of Insulated Bacterial Promoters. Nucleic Acids Research. 2010 39(3):1131-41.
  • Shin Y*, Davis JH*, Brau RR, Martin A, Kenniston JA, Baker TA, Sauer RT, Lang MJ. Single-molecule denaturation and degradation of proteins by the AAA+ ClpXP protease. PNAS 2009 Nov 17; 106:19340-5.
  • Kelly J, Rubin AJ, Davis JH, Franklin CM, Cumbers J, Czar MJ, Mora K, Glieberman AL, Monie D, Endy D. Measuring the activity of BioBrick promoters using an in vivo reference standard. J. Biol. Eng. 2009 20; 3:4.
  • Davis JH, Baker TA, Sauer RT. Engineering synthetic adaptors and substrates for controlled ClpXP degradation. J. Biol. Chem. 2009 284(33):21848-55.
  • Boon EM, Davis JH, Tran R, Karow DS, Huang SH, Pan D, Miazgowicz MM, Mathies RA, Marletta MA. Nitric oxide binding to prokaryotic homologs of the soluble guanylate cyclase beta1 H-NOX domain. J. Biol. Chem. 2006 281(31):21892-902.
  • Karow DS, Pan D, Davis JH, Behrends S, Mathies RA, Marletta MA. Characterization of functional heme domains from soluble guanylate cyclase. Biochemistry. 2005 44(49):16266-74.