PSU Profiles
Last Name

John Flanagan

InstitutionCollege of Medicine
DepartmentBiochemistry and Molecular Biology
Address500 University Drive Hershey PA 17033
Mailbox: H171
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    Professor of Biochemistry and Molecular Biology


    Penn State Hershey Cancer Institute, Experimental Therapeutics


    Biochemistry and Molecular Biology


    Ph.D., University of Tennessee, 1986
    Postdoctoral Training, Yale university

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    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Clark DN, Flanagan JM, Hu J. Mapping of Functional Subdomains in the Terminal Protein Domain of Hepatitis B Virus Polymerase. J Virol. 2017 Feb 01; 91(3). PMID: 27852858.
      View in: PubMed
    2. Bewley MC, Reinhart L, Stake MS, Nadaraia-Hoke S, Parent LJ, Flanagan JM. A non-cleavable hexahistidine affinity tag at the carboxyl-terminus of the HIV-1 Pr55Gag polyprotein alters nucleic acid binding properties. Protein Expr Purif. 2017 Feb; 130:137-145. PMID: 27721079.
      View in: PubMed
    3. Rye-McCurdy T, Olson ED, Liu S, Binkley C, Reyes JP, Thompson BR, Flanagan JM, Parent LJ, Musier-Forsyth K. Functional Equivalence of Retroviral MA Domains in Facilitating Psi RNA Binding Specificity by Gag. Viruses. 2016 Sep 19; 8(9). PMID: 27657107.
      View in: PubMed
    4. Bolinger MT, Ramshekar A, Waldschmidt HV, Larsen SD, Bewley MC, Flanagan JM, Antonetti DA. Occludin S471 Phosphorylation Contributes to Epithelial Monolayer Maturation. Mol Cell Biol. 2016 Aug 01; 36(15):2051-66. PMID: 27185880; PMCID: PMC4946429 [Available on 01/14/17].
    5. Rye-McCurdy TD, Nadaraia-Hoke S, Gudleski-O'Regan N, Flanagan JM, Parent LJ, Musier-Forsyth K. Mechanistic differences between nucleic acid chaperone activities of the Gag proteins of Rous sarcoma virus and human immunodeficiency virus type 1 are attributed to the MA domain. J Virol. 2014 Jul; 88(14):7852-61. PMID: 24789780; PMCID: PMC4097784.
    6. Bewley MC, Tash BR, Tian F, Flanagan JM. A complex affair: Attraction and repulsion make occludin and ZO-1 function! Tissue Barriers. 2013 Jan 01; 1(1):e23496. PMID: 24665376; PMCID: PMC3879131.
    7. Lees JP, Manlandro CM, Picton LK, Tan AZ, Casares S, Flanagan JM, Fleming KG, Hill RB. A designed point mutant in Fis1 disrupts dimerization and mitochondrial fission. J Mol Biol. 2012 Oct 19; 423(2):143-58. PMID: 22789569; PMCID: PMC3456991.
    8. Tash BR, Bewley MC, Russo M, Keil JM, Griffin KA, Sundstrom JM, Antonetti DA, Tian F, Flanagan JM. The occludin and ZO-1 complex, defined by small angle X-ray scattering and NMR, has implications for modulating tight junction permeability. Proc Natl Acad Sci U S A. 2012 Jul 03; 109(27):10855-60. PMID: 22711802; PMCID: PMC3390843.
    9. Woll MP, De Cotiis DA, Bewley MC, Tacelosky DM, Levenson R, Flanagan JM. Interaction between the D2 dopamine receptor and neuronal calcium sensor-1 analyzed by fluorescence anisotropy. Biochemistry. 2011 Oct 18; 50(41):8780-91. PMID: 21875085; PMCID: PMC4383324.
    10. Wang X, Tash B, Flanagan JM, Tian F. RDC derived protein backbone resonance assignment using fragment assembly. J Biomol NMR. 2011 Feb; 49(2):85-98. PMID: 21191805.
      View in: PubMed
    11. Fox TE, Bewley MC, Unrath KA, Pedersen MM, Anderson RE, Jung DY, Jefferson LS, Kim JK, Bronson SK, Flanagan JM, Kester M. Circulating sphingolipid biomarkers in models of type 1 diabetes. J Lipid Res. 2011 Mar; 52(3):509-17. PMID: 21068007; PMCID: PMC3035687.
    12. Gudleski N, Flanagan JM, Ryan EP, Bewley MC, Parent LJ. Directionality of nucleocytoplasmic transport of the retroviral gag protein depends on sequential binding of karyopherins and viral RNA. Proc Natl Acad Sci U S A. 2010 May 18; 107(20):9358-63. PMID: 20435918; PMCID: PMC2889109.
    13. Sudol M, Tran M, Nowak MG, Flanagan JM, Robertson GP, Katzman M. A nonradioactive plate-based assay for stimulators of nonspecific DNA nicking by HIV-1 integrase and other nucleases. Anal Biochem. 2010 Jan 15; 396(2):223-30. PMID: 19748478; PMCID: PMC2787845.
    14. Purdy JG, Flanagan JM, Ropson IJ, Craven RC. Retroviral capsid assembly: a role for the CA dimer in initiation. J Mol Biol. 2009 Jun 05; 389(2):438-51. PMID: 19361521; PMCID: PMC2996723.
    15. Zinnanti WJ, Lazovic J, Griffin K, Skvorak KJ, Paul HS, Homanics GE, Bewley MC, Cheng KC, Lanoue KF, Flanagan JM. Dual mechanism of brain injury and novel treatment strategy in maple syrup urine disease. Brain. 2009 Apr; 132(Pt 4):903-18. PMID: 19293241; PMCID: PMC2668944.
    16. Sundstrom JM, Tash BR, Murakami T, Flanagan JM, Bewley MC, Stanley BA, Gonsar KB, Antonetti DA. Identification and analysis of occludin phosphosites: a combined mass spectrometry and bioinformatics approach. J Proteome Res. 2009 Feb; 8(2):808-17. PMID: 19125584; PMCID: PMC3677543.
    17. Bewley MC, Graziano V, Griffin K, Flanagan JM. Turned on for degradation: ATPase-independent degradation by ClpP. J Struct Biol. 2009 Feb; 165(2):118-25. PMID: 19038348; PMCID: PMC3433037.
    18. De Cotiis DA, Woll MP, Fox TE, Hill RB, Levenson R, Flanagan JM. Optimized expression and purification of myristoylated human neuronal calcium sensor 1 in E. coli. Protein Expr Purif. 2008 Oct; 61(2):103-12. PMID: 18634883; PMCID: PMC3770182.
    19. Purdy JG, Flanagan JM, Ropson IJ, Rennoll-Bankert KE, Craven RC. Critical role of conserved hydrophobic residues within the major homology region in mature retroviral capsid assembly. J Virol. 2008 Jun; 82(12):5951-61. PMID: 18400856; PMCID: PMC2395126.
    20. Chen KM, Spratt TE, Stanley BA, De Cotiis DA, Bewley MC, Flanagan JM, Desai D, Das A, Fiala ES, Amin S, El-Bayoumy K. Inhibition of nuclear factor-kappaB DNA binding by organoselenocyanates through covalent modification of the p50 subunit. Cancer Res. 2007 Nov 01; 67(21):10475-83. PMID: 17974991.
      View in: PubMed
    21. Carkaci-Salli N, Flanagan JM, Martz MK, Salli U, Walther DJ, Bader M, Vrana KE. Functional domains of human tryptophan hydroxylase 2 (hTPH2). J Biol Chem. 2006 Sep 22; 281(38):28105-12. PMID: 16864580.
      View in: PubMed
    22. Bewley MC, Graziano V, Jiang J, Matz E, Studier FW, Pegg AE, Coleman CS, Flanagan JM. Structures of wild-type and mutant human spermidine/spermine N1-acetyltransferase, a potential therapeutic drug target. Proc Natl Acad Sci U S A. 2006 Feb 14; 103(7):2063-8. PMID: 16455797; PMCID: PMC1360125.
    23. Bewley MC, Graziano V, Griffin K, Flanagan JM. The asymmetry in the mature amino-terminus of ClpP facilitates a local symmetry match in ClpAP and ClpXP complexes. J Struct Biol. 2006 Feb; 153(2):113-28. PMID: 16406682; PMCID: PMC4377234.
    24. Howitt J, Bewley MC, Graziano V, Flanagan JM, Freimuth P. Structural basis for variation in adenovirus affinity for the cellular coxsackievirus and adenovirus receptor. J Biol Chem. 2003 Jul 11; 278(28):26208-15. PMID: 12716886.
      View in: PubMed
    25. Flanagan JM, Bewley MC. Protein quality control in bacterial cells: integrated networks of chaperones and ATP-dependent proteases. Genet Eng (N Y). 2002; 24:17-47. PMID: 12416299.
      View in: PubMed
    26. Bewley MC, Springer K, Zhang YB, Freimuth P, Flanagan JM. Structural analysis of the mechanism of adenovirus binding to its human cellular receptor, CAR. Science. 1999 Nov 19; 286(5444):1579-83. PMID: 10567268.
      View in: PubMed
    27. Huang K, Ghose R, Flanagan JM, Prestegard JH. Backbone dynamics of the N-terminal domain in E. coli DnaJ determined by 15N- and 13CO-relaxation measurements. Biochemistry. 1999 Aug 10; 38(32):10567-77. PMID: 10441154.
      View in: PubMed
    28. Huang K, Flanagan JM, Prestegard JH. The influence of C-terminal extension on the structure of the "J-domain" in E. coli DnaJ. Protein Sci. 1999 Jan; 8(1):203-14. PMID: 10210198; PMCID: PMC2144109.
    29. Wang J, Hartling JA, Flanagan JM. Crystal structure determination of Escherichia coli ClpP starting from an EM-derived mask. J Struct Biol. 1998 Dec 15; 124(2-3):151-63. PMID: 10049803.
      View in: PubMed
    30. Wang J, Hartling JA, Flanagan JM. The structure of ClpP at 2.3 A resolution suggests a model for ATP-dependent proteolysis. Cell. 1997 Nov 14; 91(4):447-56. PMID: 9390554.
      View in: PubMed
    31. Shanklin J, DeWitt ND, Flanagan JM. The stroma of higher plant plastids contain ClpP and ClpC, functional homologs of Escherichia coli ClpP and ClpA: an archetypal two-component ATP-dependent protease. Plant Cell. 1995 Oct; 7(10):1713-22. PMID: 7580259; PMCID: PMC161032.
    32. Tolman JR, Flanagan JM, Kennedy MA, Prestegard JH. Nuclear magnetic dipole interactions in field-oriented proteins: information for structure determination in solution. Proc Natl Acad Sci U S A. 1995 Sep 26; 92(20):9279-83. PMID: 7568117; PMCID: PMC40968.
    33. Flanagan JM, Wall JS, Capel MS, Schneider DK, Shanklin J. Scanning transmission electron microscopy and small-angle scattering provide evidence that native Escherichia coli ClpP is a tetradecamer with an axial pore. Biochemistry. 1995 Aug 29; 34(34):10910-7. PMID: 7662672.
      View in: PubMed
    34. Hill RB, MacKenzie KR, Flanagan JM, Cronan JE, Prestegard JH. Overexpression, purification, and characterization of Escherichia coli acyl carrier protein and two mutant proteins. Protein Expr Purif. 1995 Aug; 6(4):394-400. PMID: 8527922.
      View in: PubMed
    35. Hill RB, Flanagan JM, Prestegard JH. 1H and 15N magnetic resonance assignments, secondary structure, and tertiary fold of Escherichia coli DnaJ(1-78). Biochemistry. 1995 Apr 25; 34(16):5587-96. PMID: 7727420.
      View in: PubMed
    36. Flanagan JM, Kataoka M, Fujisawa T, Engelman DM. Mutations can cause large changes in the conformation of a denatured protein. Biochemistry. 1993 Oct 05; 32(39):10359-70. PMID: 8399179.
      View in: PubMed
    37. Engelman DM, Adair BD, BrĂ¼nger A, Flanagan JM, Hunt JF, Lemmon MA, Treutlein H, Zhang J. Dimerization of glycophorin A transmembrane helices: mutagenesis and modeling. Soc Gen Physiol Ser. 1993; 48:11-21. PMID: 8503039.
      View in: PubMed
    38. Lemmon MA, Flanagan JM, Treutlein HR, Zhang J, Engelman DM. Sequence specificity in the dimerization of transmembrane alpha-helices. Biochemistry. 1992 Dec 29; 31(51):12719-25. PMID: 1463743.
      View in: PubMed
    39. Lemmon MA, Flanagan JM, Hunt JF, Adair BD, Bormann BJ, Dempsey CE, Engelman DM. Glycophorin A dimerization is driven by specific interactions between transmembrane alpha-helices. J Biol Chem. 1992 Apr 15; 267(11):7683-9. PMID: 1560003.
      View in: PubMed
    40. Flanagan JM, Fujimura RK, Jacobson KB. Nucleic acid chromatography: substitute solid support material for RPC-5 columns. Anal Biochem. 1986 Mar; 153(2):299-304. PMID: 3010761.
      View in: PubMed
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