Recent Publications


Publications by faculty, post-doctoral associates, students, and staff of Biochemistry and Molecular Biophysics.

More can be found in the Archives.


  • Yang B., Vasbinder M., Hird A.W., Su Q., Wang H., Yu Y., Toader D., Lyne P.D., Read J.A., Breed J., Ioannidis S., Deng C., Grondine M., DeGrace N., Whitston D., Brassil P., and Janetka J.W.
    Adventures in Scaffold Morphing: Discovery of Fused Ring Heterocyclic Checkpoint Kinase 1 (CHK1) Inhibitors.
    J Med Chem. doi: 10.1021/acs.jmedchem.7b01490. (2018) (Abstract)

  • Bartels P.L., Stodola J.L., Burgers P.M.J., and Barton J.K.
    A Redox Role for the [4Fe4S] Cluster of Yeast DNA Polymerase δ.
    J Am Chem Soc. 139(50):18339-18348. doi: 10.1021/jacs.7b10284. (Abstract)

  • Guo-Min Shen, Shuang Li, Weidong Cui, Shixuan Liu, Yihu Yang, Michael L. Gross, and Weikai Li
    Membrane Protein Structure in Live Cells: Methodology for Studying Drug Interaction by Mass Spectrometry-Based Footprinting.
    Biochemistry. doi: 10.1021/acs.biochem.7b00874. (2017) (Abstract)

  • Maxwell I. Zimmerman, Kathryn M. Hart, Carrie A. Sibbald, Thomas E. Frederick, John R. Jimah, Catherine R. Knoverek, Niraj H. Tolia, and Gregory R. Bowman
    Prediction of New Stabilizing Mutations Based on Mechanistic Insights from Markov State Models
    ACS Cent. Sci., 2017, 3 (12), pp 1311–1321, DOI: 10.1021/acscentsci.7b00465 (2017) (Abstract)

  • Shuang Li, Guo-Min Shen, and Weikai Li
    Intramembrane thiol oxidoreductases: evolutionary convergence and structural controversy.
    Biochemistry. doi: 10.1021/acs.biochem.7b00876. (2017) (Abstract)

  • Tomko E.J., Fishburn J., Hahn S., and Galburt E.A.
    TFIIH generates a six-base-pair open complex during RNAP II transcription initiation and start-site scanning.
    Nat Struct Mol Biol. doi: 10.1038/nsmb.3500. (2017) (Abstract, Article)

  • Niu H., Fujiwara H., di Martino O., Hadwiger G., Frederick T.E., Menéndez-Gutiérrez M.P., Ricote M., Bowman G.R., and Welch J.S.
    Endogenous retinoid X receptor ligands in mouse hematopoietic cells.
    Sci Signal. 10(503). pii: eaan1011. doi: 10.1126/scisignal.aan1011. (2017) (Abstract)

  • Patrick G.J., Fang L., Schaefer J., Singh S., Bowman G.R., and Wencewicz T.A.
    Mechanistic Basis for ATP-Dependent Inhibition of Glutamine Synthetase by Tabtoxinine-β-lactam.
    Biochemistry. doi: 10.1021/acs.biochem.7b00838. (2017) (Abstract)

  • Nguyen B., Ordabayev Y., Sokoloski J.E., Weiland E., and Lohman T.M.
    Large domain movements upon UvrD dimerization and helicase activation.
    Proc Natl Acad Sci U S A. pii: 201712882. doi: 10.1073/pnas.1712882114. (2017) (Abstract)

  • Gill K., Macdonald-Obermann J.L., and Pike L.J.
    Epidermal growth factor receptors containing a single tyrosine in their C-terminal tail bind different effector molecules and are signaling-competent.
    J Biol Chem. pii: jbc.M117.802553. doi: 10.1074/jbc.M117.802553. (2017) (Abstract)

  • Tomko E.J. and Lohman T.M.
    Modulation of Escherichia coli UvrD Single-Stranded DNA Translocation by DNA Base Composition.
    Biophys J. 113(7):1405-1415. doi: 10.1016/j.bpj.2017.08.023. (2017) (Abstract)

  • Wang H., Shu Q., Rempel D.L., Frieden C., and Gross M.L.
    Understanding Curli Amyloid-Protein Aggregation by Hydrogen-Deuterium Exchange and Mass Spectrometry.
    Int J Mass Spectrom. 420:16-23. doi: 10.1016/j.ijms.2016.10.006. (2017) Abstract)

  • Rutaganira F.U., Barks J., Dhason M.S., Wang Q., Lopez M.S., Long S., Radke J.B., Jones N.G., Maddirala A.R., Janetka J.W., El Bakkouri M., Hui R., Shokat K.M., and Sibley L.D.
    Inhibition of calcium dependent protein kinase 1 (CDPK1) by pyrazolopyrimidine analogs decreases establishment and reoccurrence of central nervous system disease by Toxoplasma gondii.
    J Med Chem. doi: 10.1021/acs.jmedchem.7b01192. (2017) (Abstract)

  • Wang H., Rempel D.L., Giblin D., Frieden C., and Gross M.L.
    Peptide-Level Interactions between Proteins and Small-Molecule Drug Candidates by Two Hydrogen-Deuterium Exchange MS-Based Methods: The Example of Apolipoprotein E3.
    Analytical Chem. doi: 10.1021/acs.analchem.7b01121. (2017) (Abstract)

  • Kunkel T.A. and Burgers P.M.
    Arranging eukaryotic nuclear DNA polymerases for replication: Specific interactions with accessory proteins arrange Pols α, δ, and ϵ in the replisome for leading-strand and lagging-strand DNA replication.
    Bioessays. 39(8). (2017) (Abstract)

  • Albert B.J., Niu A., Ramani R., Marshall G.R., Wender P.A., Williams R.M., Ratner L., Barnes A.B., and Kyei G.B.
    Combinations of isoform-targeted histone deacetylase inhibitors and bryostatin analogues display remarkable potency to activate latent HIV without global T-cell activation.
    Sci Rep. 7(1):7456. (2017) (Abstract)

  • Kozlov A.G., Shinn M.K., Weiland E.A., and Lohman T.M.
    Glutamate promotes SSB protein-protein Interactions via intrinsically disordered regions.
    J Mol Biol. pii: S0022-2836(17)30371-6. (2017) (Abstract)

  • McCune B.T., Tang W., Lu J., Eaglesham J.B., Thorne L., Mayer A.E., Condiff E., Nice T.J., Goodfellow I., Krezel A.M., and Virgin H.W.
    Noroviruses Co-opt the Function of Host Proteins VAPA and VAPB for Replication via a Phenylalanine-Phenylalanine-Acidic-Tract-Motif Mimic in Nonstructural Viral Protein NS1/2.
    MBio. 8(4). pii: e00668-17. doi: 10.1128/mBio.00668-17. (2017) (Abstract)

  • Rebekah H. Griesenauer and Michael S.Kinch
    2016 in review: FDA approvals of new molecular entities
    Drug Discovery Today. S1359-6446(17)30129-0. (2017) (Abstract)

  • Franziska Zosel, Dominik Haenni, Andrea Soranno, Daniel Nettels, and Benjamin Schuler
    Combining short- and long-range fluorescence reporters with simulations to explore the intramolecular dynamics of an intrinsically disordered protein
    The Journal of Chemical Physics, Volume 147, Issue 15 (2017). (Abstract)

  • Stark B.C., Lanier M.H., and Cooper J.A.
    CARMIL family proteins as multidomain regulators of actin-based motility.
    Mol Biol Cell. 28(13):1713-1723 (2017) (Abstract)

  • Stewart-Hutchinson P.J., Szasz T.P., Jaeger E.R., Onken M.D., Cooper J.A., and Morley S.C.
    Technical Advance: New in vitro method for assaying the migration of primary B cells using an endothelial monolayer as substrate.
    J Leukoc Biol. 102(3):941-948. doi: 10.1189/jlb.1TA0117-008R. (2017) (Abstract)

  • Spaulding C.N., Klein R.D., Ruer S., Kau A.L., Schreiber H.L., Cusumano Z.T., Dodson K.W., Pinkner J.S., Fremont D.H., Janetka J.W., Remaut H., Gordon J.I., and Hultgren S.J.
    Selective depletion of uropathogenic E. coli from the gut by a FimH antagonist.
    Nature. 546(7659):528-532. doi: 10.1038/nature22972. (2017) (Abstract, Article)

  • Frieden C., Wang H., and Ho C.M.W.
    A mechanism for lipid binding to apoE and the role of intrinsically disordered regions coupled to domain-domain interactions.
    Proc Natl Acad Sci U S A. 114(24):6292-6297. (2017) (Abstract)

  • Owusu B.Y., Thomas S., Venukadasula P., Han Z., Janetka J.W., Galemmo R.A. Jr., and Klampfer L.
    Targeting the tumor-promoting microenvironment in MET-amplified NSCLC cells with a novel inhibitor of pro-HGF activation
    Oncotarget. 8(38):63014-63025. doi: 10.18632/oncotarget.18260. (2017) (Abstract)


More can be found in the Archives.