Heiss G, Ploetz E, Voith von Voithenberg L, Viswanathan R, Glaser S, Schluesche P, Madhira S, Meisterernst M, Auble DT, Lamb DC. Conformational changes and catalytic inefficiency associated with Mot1-mediated TBP-DNA dissociation. Nucleic Acids Res. 47:2793-2806, 2019. <PubMed>
 

Uchiyama, R., K. Kupkova, S.J. Shetty, A.S. Linford, M.G. Pray-Grant, L.E. Wagar, M.M. Davis, R. Haque, A. Gaultier, M.W. Mayo, P.A. Grant, W.A. Petri, Jr., S. Bekiranov, and D.T. Auble. Histone H3 Lysine 4 Methylation Signature Associated with Human Undernutrition. Proc. Nat. Acad Sci. USA 115:E11264-E11273, 2018. <PubMed>
 

Butryn, A., S. Woike, S.J. Shetty, D.T. Auble, and K.-P. Hopfner. Crystal Structure of the Full Swi2/Snf2 Remodeler Mot1 in the Resting State. eLife 7:e37774, 2018. <PubMed>
 

Hoffman, E. A., Zaidi, H., Shetty, S. J., Bekiranov, S. and Auble, D. T. An Improved Method for Measuring Chromatin-binding Dynamics Using Time-dependent Formaldehyde Crosslinking. Bio-protocol 8(4): e2905, 2018. <Bio-protocol>
 

H. Zaidi, E.A. Hoffman, S.J. Shetty, S. Bekiranov, and D.T. Auble. Second-generation method for analysis of chromatin binding with formaldehyde crosslinking kinetics. J. Biol. Chem. 292:19338-19355, 2017. <PubMed>
 

X. Chen, K. Poorey, M.N. Wells, U. Müller, S. Bekiranov, D.T. Auble*, and D.A. Brow*. Transcriptomes of six mutants in the Sen1 pathway reveal combinatorial control of transcription termination across the Saccharomyces cerevisiae genome. PLoS Genetics 13: e1006863, 2017. <PubMed>
 

H.A. Zaidi, D.T. Auble, and S. Bekiranov. RNA Synthesis is Associated with Multiple TBP-Chromatin Binding Events. Scientific Reports 7:39631, 2017. <PubMed>
 

R. Viswanathan, J.D. True, and D.T. Auble. Molecular mechanism of Mot1, a TATA-binding protein (TBP)-DNA Dissociating Enzyme. J. Biol. Chem. 291:15714-15726, 2016. <PubMed>
 

J.D. True, J.J. Muldoon, M.N. Carver, K. Poorey, S.J. Shetty, S. Bekiranov, and D.T. Auble. The Modifier of Transcription 1 (Mot1) ATPase and Spt16 histone chaperone co-regulate transcription through preinitiation complex assembly and nucleosome organization. J. Biol. Chem. 291:15307-15319, 2016 <PubMed>
 

A. Butryn, J.M. Schuller, G. Stoehr, P. Runge-Wollmann, F. Forster, D.T. Auble and K.P. Hopfner. Structural Basis for recognition and remodeling of the TBP:DNA:NC2 complex by Mot1. eLife 4:e07432, 2015 <PubMed>
 

R. Viswanathan, E.A. Hoffman, S.J. Shetty, S. Bekiranov, and D.T. Auble. Analysis of chromatin binding dynamics using the crosslinking kinetics (CLK) method. Methods 70:97-107, 2014 <PubMed>
 

T. Ahmed, D. Auble, J.A. Berkley R. Black P.P. Ahern M. Hossain, A. Hsieh, S. Ireen, M. Arabi, J.I. Gordon. An evolving perspective about the origins of childhood undernutrition and nutritional interventions that includes the gut microbiome. Ann. N.Y. Acad. Sci. 1332:22-38, 2014. <PubMed>
 

K. Poorey, R. Viswanathan, M.N. Carver, T.S. Karpova, S.M. Cirimotich, J.G. McNally, S. Bekiranov, and D.T. Auble. Measuring Chromatin Interaction Dynamics on the Second Time Scale at Single-Copy Genes. Science 342:369-372, 2013. <PubMed>

G. Moyle-Heyrman, R. Viswanathan, J. Widom, and D.T. Auble. Two-step Mechanism for Modifier of Transcription (Mot1) Enzyme-catalyzed Displacement of TATA-binding Protein (TBP) from DNA. J. Biol. Chem. 287:9002-9012, 2012. <PubMed>

R. Viswanathan and D.T. Auble. One Small Step for Mot1; One Giant Leap for Other Swi2/Snf2 Enzymes? BBA Gene Reg. Mech. 1809:488-496, 2011. <PubMed>

P. Wollmann, S. Cui, R. Viswanathan, O. Berninghausen, M.N. Wells, M. Moldt, G. Witte, A. Butryn, P. Wendler, R. Beckmann, D.T. Auble* and K.-P. Hopfner*. Structure and mechanism of the Swi2/Snf2 remodeler Mot1 in complex with its substrate TBP. Nature 475:403-407, 2011. *co-corresponding authors <PubMed > <EcTBP structure (PDB 3OCI)> <EcMot1 NTD-TBP complex (PDB 3OC3)>

E. M. Hyland, H. Molina, K. Poorey, C. Jie, Z. Xie, J. Dai, J. Qian, S. Bekiranov, D.T. Auble, A. Pandey, and J.D. Boeke. An Evolutionarily "Young" Lysine Residue In Histone H3 Attenuates Transcriptional Output in Saccharomyces cerevisiae. Genes & Dev. 25:1306-1319, 2011. <PubMed> <Table S1> <Table S2> <Table S3> <Supplemental Figures>

K. Poorey, R.O. Sprouse, M.N. Wells, R. Viswanathan, S. Bekiranov, and D.T. Auble. RNA Synthesis Precision Is Regulated by Preinitiation Complex Turnover. Genome Res. 20:1679-1688, 2010. <PubMed> <Supplemental Material>

S.L. Wade and D.T. Auble. The Rad23 Ubiquitin Receptor, the Proteasome and Functional Specificity in Transcriptional Control. Transcription 1:22-26, 2010. <PubMed>

S.L. Wade, K. Poorey, S. Bekiranov, and D.T. Auble. The Snf1 kinase and proteasome-associated Rad23 regulate UV-responsive gene expression. EMBO J. 28:2919–2931, 2009. <PubMed> <Supplemental Results> <List of all genes with a significant UV effect in WT cells>

R.O. Sprouse, M.N. Wells, and D.T. Auble. TATA Binding Protein Variants that Bypass the Requirement for Mot1 In Vivo. J. Biol. Chem. 284:4525-4535, 2009. <PubMed> <Supplemental Results>

D. Basu, M. P. Walkiewicz, M. Frieman, R.S. Baric, D.T. Auble, and D.A. Engel. Novel influenza NS1 antagonists block replication and restore innate immune function. J. Virol. 83:1881-1891, 2009. <PubMed>

D.T. Auble.  The Dynamic Personality of TATA-Binding Protein. Trends in Biochem. Sci. 34:49-52, 2009. <PubMed>

R.O. Sprouse, T.S. Karpova, F. Mueller, A. Dasgupta, J.G. McNally, and D.T. Auble. Regulation of TATA-Binding Protein Dynamics in Living Yeast Cells. Proc. Nat. Acad. Sci. USA 105:13304 –13308, 2008. <PubMed> <Supporting Information>

R.O. Sprouse, I. Shcherbakova, H. Cheng, E. Jamison, M. Brenowitz, and D.T. Auble. Functional and Structural Organization of Mot1 Bound to a Natural Target Promoter. J. Biol. Chem. 283:24935-24948, 2008. <PubMed> <Table S1> <Figure S1> (Figure S1 is a movie.)

A. Dasgupta, R.O. Sprouse, S. French, P. Aprikian, R. Hontz, S.A. Juedes, J.S. Smith, A.L. Beyer, and D.T. Auble. Regulation of rRNA Synthesis by TATA-Binding Protein-Associated Factor Mot1. Mol. Cell. Biol. 27:2886-2896, 2007. <PubMed>

R.O. Sprouse, M. Brenowitz, and D.T. Auble. Snf2/Swi2-Related ATPase Mot1 Drives Displacement of TATA-Binding Protein by Gripping DNA.  EMBO J. 25: 1492-1504, 2006. <PubMed>
Supplemental data:<Figure S1> <Figure S2> <Figure S3> <Figure S4>

A. Dasgupta, S.A. Juedes, R.O. Sprouse, and D.T. Auble. Mot1-Mediated Control of Transcription Complex Assembly and Activity.  EMBO J. 24: 1717-1729, 2005.  <PubMed>
Supplemental data: <Figure S1> <Figure S2> <Figure S3> <Figure S4> <Table S1>

T. Miyake, J. Reese, C. Loch, D.T. Auble, and R. Li. Genome-Wide Analysis of ARS Binding Factor 1 (Abf1p)-Mediated Transcriptional Regulation in Saccharomyces cerevisiae.  J. Biol. Chem., 279: 34865-34872, 2004.  <PubMed>

K.L. Ramsey, J. J. Smith, A. Dasgupta, N. Maqani, Patrick Grant and D.T. Auble.  The NEF4 complex regulates Rad4 levels and utilizes Snf2/Swi2-related ATPase activity for nucleotide excision repair.  Mol. Cell. Biol., 24: 6362-6378, 2004.  <PubMed> <Supplemental data>

A. Dasgupta,  K.L. Ramsey, J.S. Smith and D.T. Auble.  Sir Antagonist 1 (San1) is a Ubiquitin Ligase.  J. Biol. Chem., 279: 26830-26838, 2004.  <PubMed>

R. P. Darst, A. Dasgupta, C. Zhu, J.-Y. Hsu, A. Vroom, T. Muldrow, and D. T. Auble.  Mot1 Regulates the DNA Binding Activity of Free TBP in an ATP-Dependent Manner. J. Biol. Chem, 278:13216-13226, 2003.  <PubMed>

A. Dasgupta, R.P. Darst, K.J. Martin, C.A. Afshari, and D.T. Auble.  Mot1 Activates and Represses Transcription by Direct, ATPase-Dependent Mechanisms.  Proc. Nat. Acad. Sci. USA 99:2666-2671, 2002.  <PubMed> <Supplemental data>

R.P. Darst, D. Wang, and D.T. Auble. Mot1-Catalyzed TBP-DNA Disruption: Uncoupling DNA Conformational Change and Role of Upstream DNA.  EMBO J.   20:2028-2040, 2001.  <PubMed>

Y. Cang, D.T. Auble, and G. Prelich.  A New Regulatory Domain on the TATA-Binding Protein.  EMBO J. 18:6662-6671, 1999.  <PubMed>

T.A. Muldrow, A.M. Campbell, P.A. Weil, and D.T. Auble.  Mot1 Can Activate Basal Transcription In Vitro by Regulating the Distribution of TBP Between Promoter and Nonpromoter Sites.  Mol. Cell. Biol. 19:2835-2845, 1999.  <PubMed>

D.T. Auble, and S.M. Steggerda.  Testing for DNA Tracking by Mot1, a Snf2/Swi2 Protein Family Member.  Mol. Cell. Biol. 19:412-423, 1999. <PubMed>