Dunham Lab Publications


35. Hong S*, Sunita S, Maehigashi T, Hoffer ED, Dunkle JA and Dunham CM. (2018) Mechanism of tRNA-mediated +1 ribosomal frameshifting. (epub Sept 27) Proc Natl Acad Sci [link to PDF]

34. Zhang Y*, Hong S*, Ruangprasert A, Skiniotis G and Dunham CM. (2018) Alternative modes of E-site tRNA binding in the presence of structured mRNAs at the mRNA entrance channel. Structure. 26(3):437-445. PMID: 29456023. [link to PDF]


33. Nguyen HA and Dunham CM. (2017). Genome mining. Digging the tunnel for chemical space. Nature Chemical Biology 13(10): 1061-2. PMID: 289926552. [link to PDF]

32. Hoffer EA, Miles SJ and Dunham CM. (2017). The structure and function of Mycobacterium tuberculosis MazF-mt6 provides insights into conserved features of MazF endonucleases. Journal of Biological Chemistry 292(19):7718-26. PMCID: PMC5427253. [link to PDF]

31. Ruangprasert A, Maehigashi T, Miles SJ and Dunham CM. (2017). Importance of the E. coli DinJ antitoxin carboxy terminus for toxin suppression and regulated proteolysis. Molecular Microbiology 104(1):65-77. PMID: 28164393. *Co-first and co-corresponding authors. [link to PDF]


30. Pierson W*, Hoffer ED, Keedy H, Simms C, Dunham CM* and Zaher H*. (2016). Uniformity of Peotide Release is Maintained by Methylation of Release Factors. Cell Reports 17(1):11-18. PMID: 27681416. *Co-first and co-corresponding authors. [link to PDF]

29.  Schureck MA, Repack A, Miles SJ, Marquez J and Dunham CM (2016). Mechanism of endonuclease cleavage by the HigB toxin. Nucleic Acids Res 44(16): 7944-53. PMCID: PMC5027501. [link to PDF].

28.  Schureck MA, Maehigashi T, Miles SJ, Marquez J and Dunham CM. (2016). mRNA bound to the 30S subunit is a HigB endonuclease substrate. RNA 22(8):1261-70. PMCID: PMC4931118. [link to PDF].


27. Schureck MA, Dunkle JA, Maehigashi T, Miles SJ and Dunham CM. (2015). Defining the mRNA recognition signature of a bacterial protein toxin. Proc Natl Acad Sci 112(45):13862-7. [link to PDF]. Link to LabLand: Emory Health Sciences Research Blog

26. Maehigashi T*, Ruangprasert A*, Miles SJ and Dunham CM (2015). Molecular basis of ribosome regulation and mRNA hydrolysis by the E. coli YafQ toxin. Nucleic Acids Research 43(16):8002-12. PMID: 26261214. *These authors contributed equally. [link to PDF].

25. Cruz JW, Sharp JD, Hoffer ED, Maehigashi T, Vyedenskaya IO, Konkimalla A, Husson RN, Nickels BE, Dunham CM and Woychik NA (2015). Growth-regulating Mycobacterium tuberculosis VapC-mt4 toxin is an isoacceptor-specific tRNase. Nature Communications. 6:7480-7489. PMID: 26158745. [link to PDF].

24. Dunkle JA, Dunham CM (2015). Mechanisms of mRNA frame maintenance and its subversion during translation of the genetic code. Biochimie 114:90-6. PMCID: PMC4458409. [link to PDF].


23. Fagan CE, Maehigashi T, Dunkle JA, Miles SJ and Dunham CM (2014). Structural insights into translational recoding by frameshift suppressor tRNASufJ. RNA. 20(12):1944-54.  PMCID: PMC4238358. [link to PDF]

22. Washington AZ, Benicewicz DB, Canzoneri JC, Fagan CE, Mwakwari SC, Maehigashi T, Dunham CM*, Oyelere AK* (2014). Macrolide-peptide conjugates as probes of the path of travel of the nascent peptides through the ribosome. ACS Chem Biol. 9(11):2621-31.PMID: 25198768. PMCID: PMC4245169. *These authors contributed equally. [link to PDF]

21. Maehigashi T*, Dunkle JA*, Miles SJ and Dunham CM (2014). Structural insights into +1 frameshifting promoted by expanded or modification-deficient anticodon stem-loops. Proc Natl Acad Sci, 111(35):12740-5. PMCID: PMC4156745. *These authors contributed equally. [link to PDFLink to LabLand: Emory Health Sciences Research Blog

20. Ruangprasert A*, Maehigashi T*, Miles SJ, Giridharan N, Liu JX and Dunham CM (2014). Mechanisms of toxin inhibition and transcriptional repression by E. coli DinJ-YafQ. Journal of Biological Chemistry, 289(30):20559-69. PMCID: PMC4110269. [link to PDF] *These authors contributed equally.

19. Schureck MA and Dunham CM (2014). Bacterial warfare again targets the ribosome. 6;22(5):661-2. Structure. PMID: 24807074. [link to PDF]

18. Dunkle JA, Vinnal K, Desai PM, Zelinskaya N, Savic M, West DM, Conn GL* and Dunham CM* (2014). Molecular recognition and modification of the 30S ribosome by the aminoglycoside-resistance methyltransferase NpmA. Proc Natl Acad Sci, 111(17):6275-80. PMCID: PMC4035980. [link to PDF] Link to LabLand: Emory Health Sciences Research Blog *Co-corresponding authors.

17. Cruz JW*, Rothenbacher FP*, Maehigashi T, Lane WS, Dunham CM, Woychik NA (2014). Doc toxin is a kinase that inactivates elongation factor Tu. Journal of Biological Chemistry 289(11):7788-98. PMCID: PMC3953291. [link to PDF] *These authors contributed equally.

16. Schureck MA, Maehigashi T, Miles SJ, Marquez J, Ei Cho S, Erdman R and Dunham CM (2014). Structure of the P. vulgaris HigB-(HigA)2-HigB toxin-antitoxin complex. Journal of Biological Chemistry, 289(2):1060-70. PMCID: PMC3887174. [link to PDF]


15. Fagan CE, Dunkle JA, Maehigashi T, Dang MN, Deveraj A, Miles SJ, Qin D, Fredrick K and Dunham CM (2013). Reorganization of an intersubunit bridge induced by disparate 16S ribosomal ambiguity mutations mimics an EF-Tu-bound state. Proc Natl Acad Sci, 110(24):9716-21. PMCID: PMC3683721. [link to PDF][link to PDF of commentary]

14. Jones BL, VanLoozen J, Kim MH, Miles SJ, Dunham CM, Williams LD and Snell TW (2013). Stress granules form in Brachionus manjavacas (Rotifera) in response to a variety of stressors. Comp Biochem Physiol A Mol Integr Physiol. 166(2):375-84. PMID: 23856158. [link to PDF]


13. Meisner J*, Maehigashi T*, André I, Dunham CM*, Moran CP Jr* (2012). Structure of the basal components of a bacterial transporter. Proc Natl Acad Sci, 109(14):5446-51. PMCID: PMC3325725. [link to PDF] *These authors contributed equally. #Co-corresponding authors


12. Leung SW, Apponi LH, Cornejo OE, Kitchen CM, Valentini SR, Pavlath GK, Dunham CM, Corbett AH (2009). Splice variants of the human ZC3H14 gene generate multiple isoforms of a zinc finger polyadenosine RNA binding protein. Gene439(1-2):71-8. PMCID: PMC2680464. [link to PDF]

11. Neubauer C*, Gao Y-G*,, Andersen KR*,, Dunham CM, Kelley AC, Hentschel J, Gerdes K Ramakrishnan V, and Brodersen DE (2009). The structural basis for mRNA recognition and cleavage by the ribosome-dependent endonuclease RelE. Cell, 139(6): 1084-1095. PMCID: PMC2807027. [link to PDF] *,These authors contributed equally.

10. Gao Y-G, Selmer M, Dunham CM, Weixlbaumer A,  Kelley AC, Ramakrishnan V (2009). The Structure of the Ribosome with Elongation Factor G Trapped in the Posttranslocational State. Science, 326(5953): 694-99. PMCID: PMC3763468. [link to PDF]


9. Weixlbaumer A, Petry S*, Dunham CM*, Selmer M*, Kelley AC and Ramakrishnan V (2007). Crystal structure of the ribosome recycling factor bound to the ribosome. Nature Structural Molecular Biology, 14(8): 733-7. PMID: 17660830. [link to PDF] *These authors contributed equally.

8. Dunham CM and Conn GL (2007). Recombinant RNA expression. Nature Methods, 4(7):547-8. PMID: 17599081. [link to PDF]

7. Dunham CM*, Selmer M*, Phelps SS, Kelley AC, Suzuki T, Joseph S and Ramakrishnan V (2007). Structures of tRNAs with an expanded anticodon loop in the decoding center of the 30S ribosomal subunit. RNA, 13(6):817-23. PMCID: PMC1869038. [link to PDF] *These authors contributed equally.

6. Selmer M*, Dunham CM*, Murphy IV FV, Weixlbaumer A, Petry S, Kelley AC, Weir J and Ramakrishnan V (2006). Structure of the 70S Ribosome Complexed with mRNA and tRNA. Science, 313(5795):1935-42. PMID: 16959973. [link to PDF]. Highlighted in the ‘News and Views’ section, Nature Structural & Molecular Biology, 13:864. *These authors contributed equally.

5. Petry S, Broderson DE, Murphy IV FV, Dunham CM, Selmer M, Tarry MJ, Kelley AC and Ramakrishnan V (2005). Crystal structures of release factors RF1 and RF2 bound to a programmed ribosome with a cognate stop codon. Cell, 123(7):1255-66. PMID: 16377566. [link to PDF]


4. Dunham CM, Murray JB, and Scott WG (2003). A Helical Twist-Induced Conformational Switch Activates Cleavage in the Hammerhead Ribozyme. Journal of Molecular Biology, 332(2):327-36. PMID: 12948485. [link to PDF]

3. Dunham CM*, Dioum EM*, Tuckerman JR, Gonzalez G, Scott WG and Gilles-Gonzalez M-A (2003). A distal arginine in oxygen-sensing heme-PAS domains is essential to ligand binding, signal transduction, and structure. Biochemistry, 42(25):7701-7708. PMID:12820879. [link to PDF] *These authors contributed equally

2. Murray JB, Dunham CM and Scott WG (2002). A pH-Dependent Conformational Change, Rather than the Chemical Step, Appears to be Rate-Limiting in the Hammerhead Ribozyme Cleavage Reaction.  Journal of Molecular Biology, 315(2):121-130. PMID: 11779233. [link to PDF]

1. Burns CS*, Aronoff-Spencer E*, Dunham CM*, Lario P, Avdievich NI, Antholine WE, Olmstead MM, Vrielink A, Gerfen GJ, Peisach J, Scott WG and Millhauser GL (2002). Molecular Features of the Copper Binding Sites in the Octarepeat Domain of the Prion Protein. Biochemistry, 41(12):3991-4001. PMID: 11900542. [link to PDF] *These authors contributed equally. 

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