Publications

MT-SP1 Proteolysis and Regulation of Cell-Microenvironment Interactions. Darragh, M.R., Bhatt, A.S., and Craik, C.S. Front in Biosci. [Epub ahead of print] (2008).

Coordinate Expression and Functional Profiling Identify an Extracellular Proteolytic Signaling Pathway. Bhatt, A.S., Welm, A., Farady, C.J., Vasquez, Wilson, K., and Craik, C.S. PNAS (2007) in press.

The Mechanism of Inhibition of Antibody-Based Inhibitors of Membrane-Type Serine Protease 1 (MT-SP1). Farady, C.J., Sun, J., Darragh, M.R., Miller, S.M., and Craik, C.S. J. Mol. Bio. (2007) in press.

IrAE – An Asparaginyl Endopeptidase (Legumain) in the Gut of the Hard Tick Ixodes Ricinus. Sojka, D. Hajdusek, O., Dvorak, J., Sajid, M., Franta, Z., Schneider, E.L., Craik, C.S., Vancova, M., Buresova, V., Bogyo, M., Sexton, K.B., McKerrow, J.H., Caffrey, C.R., Kopacek, P. Int. J. Parasitol. (2007) [Epub ahead of print]

Substrate Specificity Profiling and Identification of a New Class of Inhibitor for the Major Protease of the SARS Caronavirus. Goetz, D.H., Choe, Y., Hansell, E., Chen, Y.T., McDowell, M., Jonsson, C.B., Roush, W.R., McKerrow, J., and Craik, C.S. Biochemistry [ePub ahead of print]

Hip is a Pro-survival Substrate of Granzyme B. Hostetter, D.R., Loeb, C.R.K., Chu, F. and Craik, C.S. J. Biol. Chem., (2007) [Epub ahead of print].

Substrate Modulation of Enzyme Activity in the Herpesvirus Protease Family. Lazic, A., Goetz, D.H., Nomura, A.M., Marnett, A.B. and Craik, C.S. J. Mol. Biol. (2007) [Epub ahead of print].

One Functional Switch Mediates Reversible and Irreversible Inactivation of a Herpesvirus Protease. Normura, A.M., Marnett, A.B., Shimba, N., Dötch, and Craik, C.S. Biochemistry 45(11), 3572-9 (2006)

Substrate Profiling of Cysteine Proteases Using a Combinatorial Peptide Library Identifies Functionally Unique Specificities. Choe, Y., Leonetti, F., Greenbaum, D.C., Lecaille, F., Bogyo, M., Brömme, D., Ellman, J.A., and Craik, C.S. J. Biolchem. 281(18), 12824-32 (2006)

Conversion of Trypsin to a Functional Threonine Protease. Baird, T.T., Wright, W.D. and Craik, C.S. Protein Sci. 15(6), 1229-38 (2006)

Specificity Profiling of Seven Human Tissue Kallikreins Reveals Individual Subsite Preferences. Debela, M., Magdolen, V., Schechter, N., Valachova, M., Lottspeich, F., Craik, C.S., Choe, Y., Bode, W., and Goettig, P. J. Biol. Chem. 281(35), 25678-88 (2006)

Plasminogen Activation Independent of uPA and tPA Maintains Wound Healing in Gene-Deficient Mice. Lund, L.R., Green, K.A., Stoop, A.A., Ploug, M., Almholt, K., Lilla, J., Nielsen, B.S., Christensen, I.J., Craik, C.S., Werb, Z., Dano, K. and Romer, J. EMBO 25(12), 2686-97 (2006)

Granzyme B Proteolyzes Receptors Important to Proliferation and Survival, Tipping the Balance Towards Apoptosis. Loeb, C.R.K., Harris, J. and Craik, C.S. J. Biol. Chem. 281(38), 28326-35 (2006)

Isotope-coded and Affinity-tagged Cross-linking (ICATXL): An Efficient Strategy to Probe Protein Interaction Surfaces. Chu, F., Mahrus, S., Craik, C.S., and Burlingame, A. J. Amer. Chem Soc. 123(32), 10362-3. (2006)

Expression and Characterization of Constitutively Active Human Caspase-14. Park, K., Keuchle, M.K., Choe, Y., Craik, C.S. Lawrence, O.T., and Presland, R.B. Biochem Biophys Res Commun. 347(4), 941-8 (2006).

Selective Chemical Functional Probes of Granzymes A and B Demonstrate Granzyme B is a Major Effector of Natural Killer Cell-Mediated Lysis of Target Cells. Mahrus, S. and Craik, C.S. Chem. Biol. 12(5), 567-77 (2005)

Adhesion Signaling By a Novel Mitotic Substrate of SRC Kinases. Bhatt, A., Erdjument-Bromage, H., Tempst, P., Craik, C.S., and Moasser, M. Oncogene, 24(34) 5333-43 (2005)

Hepatocyte Growth Factor is a Preferred In Vitro Substrate for Human Hepsin, a Membrane-anchored Serine Protease Implicated in Prostate and Ovarian Cancers. Herter, S., Piper, D.E., Aaron, W., Gabriele, T., Cutler, G., Cao, P., Bhatt, A.S., Choe, Y., Craik, C.S., Walker, N., Meininger, D., Hoey, T. and Austin, R.J. Biochem J. 390(1), 125-36 (2005)

Induced Structure: A Transitional Helix Switch that Regulates Enzyme Activity. *Nomura, A.M., *Marnett, A.B., Shimba, N., Doetch, V., and Craik, C.S. Nat. Struc. Mol. Bio. 12(11) 1019-20 (2005)

Substrates of the Prostate-specific Serine Protease Prostate/KLK4 Defined by Positional-scanning Peptide Libraries. Matsumura, M. Bhatt, A.S., Andress, D., Clegg, N., Takayama, T.K. and Craik, C.S. Prostate 62(1), 1-13 (2005)

Papa's Got a Brand New Tag: Advances in Identification of Proteases and their Substrates. Marnett, A.B. and Craik, C.S. Trends in Biotechnol. 23(2), 59-64 (2005)

Development of Alpha-Keto-based Inhibitors of Cruzain, a Cysteine Protease Implicated in Chagas Disease. Choe, Y., Brinen, L.S., Price, M.S., Engel, J.C., Lange, M. Grisostomi, C., Weston, S.G., Pallai, P.V., Cheng, H., Hardy, L.W., Hartsough, D.S., McMakin, M., Tilto, R.F. Baldino, C.M., and Craik, C.S. Bioorg. Med. Chem. 13(6), 2141-56 (2005)

A Multi-Enzyme Cascade of Hemoglobin Proteolysis in the Intestine of Blood-Feeding Hookworms. Williamson, A.L., Lecchi, P.X., Turk, B.E., Choe, Y., Hotez, P.J., McKerrow, J.H., Cantley, L.C., Sajid, M., Craik, C.S. and Loukas, A. J. Biol. Chem. 279(34), 35950-7 (2004)

Methyl Groups as Probes for Proteins and Complexes in In-Cell NMR Experiments. Serber, Z., Straub, W. Corsini, L.. Nomura, A.M., Shimba, Craik. C.S., N., Ortiz de Montellano, P. and Dotsch V. J. Amer. Chem. Soc. 126(22) 7119-25 (2004)

Optimization of (13) C direct detection NMR methods. Shimba, N. Kovack, H., Stern, A.S., Nomura, A.M., Shimada, I. Hoch, J.C., Craik, C.S., and Dotsch V. J. Biomol. NMR 30(2), 175-9. (2004)

Granzyme M is a Regulatory Protease that Inactivates Proteinase Inhibitor 9, an Endogenous Inhibitor of Granzyme B. Mahrus, S. Kisiel, W. and Craik, C.S. J. Biol. Chem. 279(52), 54275-82 (2004)

Trypsin. Halfon, S., Baird, T.T., and Craik, C.S. Handbook of Proteolytic Enzymes 2nd Ed. (2004)

Brachyurins. Tsu, C., and Craik, C.S. Handbook of Proteolytic Enzymes 2nd Ed. (2004)

Identification and Biochemical Characterization of Vivapains, Cysteine Proteases of the Malaria Parasite Vivax. Na, B.K., Shenai, B.R., Sijwali, P.S., Choe, Y. Pandey, K.C., Singh, A. Craik, C.S. and Rosenthal, P.J. Biochem. J. 378(2), 529-38 (2004)

The Periplasmic Serine Protease Inhibitor Ecotin Protects Bacteria Against Neutrophil Elastase. Eggers, C.T., Murray, I.A., Delmar, V.A., Day, A.G. and Craik, C.S. Biochem J. 379(1), 107-18 (2004)

Communication Between the Active Site and Dimer Interface of a Herpesvirus Protease Revealed by a Transition-State Inhibitor. Marnett, A.B., Nomura, A.M., Shimba, N., Ortiz de Montellano, P.R. and Craik, C.S. PNAS 101(18), 6870-5 (2004)

Characterization of Structural Determinants of Granzyme B Reveals Potent Mediators of Extended Substrate Specificity. Ruggles, S.W., Fletterick, R.J., and Craik, C.S. J Biol. Chem. 279(29), 30751—59 (2004)

Herpesviral Protease Inhibition by Dimer Disruption. Shimba, N. Nomura, A.M., Marnett, A.B. and Craik, C.S. J. Virol. 78(12) 6657-65 (2004)

Quantitation of Membrane Type Serine Protease 1 (MT-SP1) in Transformed and Normal Cells. A.S. Bhatt, T. Takeuchi, B. Ylstra, D. Ginzinger, D. Albertson, M.A. Shuman and C.S. Craik. Biological Chemistry 384(2), 257-66 (2003)

Design and Synthesis of Novel Inhibitors of Gelatinase B. X. Wang, Y. Choe C.S. Craik and J.A. Ellman. Bioorg & Med. Chem. Ltrs. 12(16), 2201-4 (2003)

Catalytic Properties and Inhibition of Proline-Specific Dipeptidyl Peptidases II, IV and VII. B. Leiting, K.D. Pryor, J.K. Wu, F. Marsilio, R.A. Patel, C.S. Craik, J.A. Ellman, R.T. Cummings and N. Thornberry. Biochemistry 371(2), 525-32 (2003)

Potent and Selective Inhibition of Membrane Type Serine Protease 1 by Human Single-Chain Antibodies. J. Sun, J. Pons and C.S. Craik. Biochemistry 42, 892-900 (2003)

The CD8+ Cell Noncytotoxic Anti-HIV Response Can Be Blocked by Protease Inhibitors. Mackewicz, C.S. Craik and J.A. Levy. PNAS 100(6), 3433-8 (2003)

Elimination of 13Ca Splitting in Protein NMR Spectra by Deconvolution with Maximum Entropy Reconstruction. N. Shimba, A.S. Stern, C.S. Craik, J.C. Hoch and V. Döetsch. J. Amer. Chem. Soc. 125(9), 2382-3 (2003)

Albumin is a Substrate of Human Chymase: Prediction by Combinatorial Peptide Screening and Development of a Selective Inhibitor Based on the Albumin Cleavage Site. W.W. Raymond, S. Waugh Ruggles, C.S. Craik, G.H. Caughey. J. Biol. Chem. 278(36), 34517-24 (2003)

The Oligomeric Structure of Human Granzyme A is a Determinant of its Extended Substrate Specificity. J.K. Bell, D.H. Goetz, S. Mahrus, J.L. Harris, R.J. Fletterick, C.S. Craik. Nat Struct Biol. 10(7), 527-34 (2003)

Engineering of a Macromolecular Scaffold to Develop Specific Protease Inhibitors. Stoop, A.A., Craik, C.S. Nat Biotechnol. 21(9), 1036-8 (2003)

Quantitative Identification of the Protonation State of Histidines In Vitro and In Vivo. Shimba, N., Serber, Z., Ledwidge, R., Miller, S.M., Craik, C.S. and Doetsch, V. Biochem. 42(30), 9227-34 (2003)

Altered Substrate Specificity of Drug-Resistant HIV-1 Protease. D. Dauber, R. Zierman, N. Parkin, D.J. Maly, S. Mahrus, J.L. Harris, J.A. Ellman, C. Petropoulos, C.S. Craik. J. Virol. 76, 1359-1368 (2002)

Conformational Change Coupling the Dimerization and Activation of KSHV Protease. T.R. Pray, K.K. Reiling, B.G. Dermirjian, C.S. Craik. Biochemistry 41(5), 1474-82 (2002)

Expedient Solid-Phase Synthesis of Fluorogenic Protease Substrates Using the 7-Amino-4-Carbamoylmethylcoumarin (ACC) Fluorophore. D.J. Maly, F. Leonetti, B.J. Backes, D.S. Dauber, J.L. Harris, C.S. Craik and J.A. Ellman. J. Org. Chem. 67(3), 910-915 (2002)

Chemically Mediated Site-specific Proteolysis. Alteration of Protein-Protein Interaction. B. Wang, K.C. Brown, M. Lodder, C.S. Craik, S.M. Hecht. Biochemistry 41 (8), 2805-2813 (2002)

Substrate Specificity of Schistosome Versus Human Legumain Determined by P1-P3 Peptide Libraries. M.A. Mathieu, M. Boygo, C.R. Caffrey, Y. Choe, J. Lee, H. Chapman, M. Sajid, C.S. Craik & J. McKerrow. Mol. Biochem. Parisitol 121 (1), 99-105 (2002)

Anisotropic Dynamics of the JE-2147-HIV Protease Complex: Drug Resistance and Thermodynamic Binding Mode Examined in a 1.09Å structure. K.K. Reiling, N.F. Endres, D.S. Dauber, C.S. Craik, R.M. Stroud. Biochemistry 41(14), 4582-4594 (2002)

Computer-Assisted Mutagenesis of Ecotin to Engineer its Secondary Binding Site for Urokinase Inhibition. M.C. Laboissiere, M.M. Young, R.G. Pinho, S. Todd, R.J. Fletterick, I. Kuntz, C.S. Craik. J Bio. Chem. 277 (29), 26623-31 (2002)

Special Delivery (Letter to the Editor). C. Berry, B.M. Dunn, C.S. Craik and John Kay. Biochem & Mol. Bio. Education, 30(3), 151. (2002)

Selective Inhibition of the Collagenolytic Activity of Human Cathepsin K by Altering its S2 Subsite Specificity. F. LeCaille, Y. Choe, W. Brandt, Z. Li, C.S. Craik and Bromme D. Biochemistry 41(26), 8447-54 (2002)

Scanning the Prime-Site Substrate Specificity of Proteolytic Enzymes: A Novel Assay Based on Ligand-Enhanced lanthanide Ion Fluorescence. A. Barrios and C.S. Craik. Bioorg Med Chem Ltrs. 12(24), 3619-23 (2002)

Cercarial Elastase is Encoded by a Functionally Conserved Gene Family Across Multiple Species of Schistosomes. J.P. Salter, Y. Choe, H. Albrecht, C. Franklin, K.C. Lim, C.S. Craik, J.H. McKerrow. J. Bio. Chem. 277(27), 24618-24 (2002)

Critical Role of Amino Acid 23 in Mediating Activity and Specificity of Vickepain-2, a Papain-family Cysteine Protease of Rodent Malaria Parasites. A. Singh, B.R. Shenai, Y. Choe, J. Gut, P.S. Sijwali, C.S. Craik and P.J. Rosenthal. Biochem J. 368(1), 273-81 (2002)

Trypsin. T.T. Baird Jr. & C.S. Craik. Encyclopedia of Genetics. Academic Press (2001)

A Plasma Kallikrein-dependent Plasminogen Cascade Required for Adipocyte Differentiation. S. Selvarajan, L.R. Lund, T. Takeuchi, C.S. Craik & Z. Werb. Nature Cell Biology, 3, 267-275 (2001)

Lytic Replication of Kaposi’s Sarcoma-Associated Herpesvirus Results in the Formation of Multiple Capsid Species: Isolation and Molecular Characterization of A, B, and C Capsids from a Gammaherpesvirus. K. Nealon, W. W. Newcomb, T.R. Pray, C.S. Craik, J.C. Brown and D.H. Kedes. J. Virol. 75, 2866-78 (2001)

Novel Inter-Protein Cross-link Identified in the GGH-ecotin D137Y Dimer. M. Person, K. Brown, S. Mahrus, C.S. Craik and A. Burlingame. Protein Science, 10, 1549-1562 (2001).

The Role of Ecotin Dimerization in Protease Inhibition. C. Eggers, S. Wang, R. J. Fletterick and C. S. Craik. J. Mol. Bio. 308, 975-991 (2001)

Definition of the Extended Substrate Specificity Determinants for Beta-Tryptases I and II. J.L. Harris, A. Niles, K. Burdick, M. Maffitt, B.J. Backus, J.A. Ellman, I. Kuntz, M. Haak-Frendscho, C.S. Craik, J. Bio. Chem., 276 (37), 34941-34947 (2001)

Structural Features of a Snake Venom Thrombin-like Enzyme: Thrombin and Trypsin on a Single Catalytic Platform. H.C. Castro, D.M. Silva, C.S. Craik, R.B. Zingali. Biochim Biophys Acta 1547, 183-95 (2001)

Cathespin G Activates Protease-Activated Receptor-4 in Human Platelets. G. Sambrano, W. Huang, T. Farugi, S. Mahrus, C.S. Craik & S.R. Coughlin. J. Bio. Chem. 275 (10), 6819-6823 (2000)

Yeast Two-Hybrid Assay for Examining HIV Protease Heterodimer Formation with Dominant Negative Inhibitors and Multidrug-Resistant Variants. S. Todd, M. Laboissiere, and C.S. Craik. Anal Biochem. 277,247-253 (2000)

Synthesis of Positional Scanning Libraries of Fluorogenic Peptide Substrates to Define the Substrate Specificity of Plasmin and Thrombin. B.J. Backes, J.L. Harris, F. Leonetti, C.S. Craik & J.A. Ellman. Nature Biotech.18(2), 187-193 (2000)

HIV Protease as a Target for Retrovirus Vector-mediated Gene Therapy. S. Todd & C.S. Craik. Biochem Et Biophys. Acta 1477 (1-2), 168-188 (2000).

Proteases: The Tip of the Iceberg. J. Harris & C.S. Craik. Cell 101, 136-137 (2000)

Macromolecular Inhibitors of HIV-1 Protease. J.E. Rozzelle, D.S. Dauber, S. Todd, R. Kelley, & C.S. Craik. J. Bio. Chem. 275 (10) 7080-7086.

Compromise and Accomodation in Ecotin, a Dimeric Macromolecular Inhibitor of Serine Proteases. S.A. Gillmore, T. Takeuchi, S.Q. Yang, C.S. Craik & R. Fletterick. J. Mol. Bio. 299, 993-1003 (2000)

Functional Consequences of the Kaposi’s Sarcoma-Associated Herpesvirus Protease Structure: Regulation of Activity and Dimerization by Conserved Structural Elements. K.K. Reiling, T.R. Pray, C.S. Craik, R.M. Stroud. Biochem. 39(42), 12796-12803 (2000)

Rapid and General Profiling of Protease Specificity by Using Combinatorial Fluorogenic Substrate Libraries. J.L. Harris, B.J. Backes, F. Leonetti, S. Mahrus, J.A. Ellman and C.S. Craik. Proc. Natl. Acad. Sci., 275, 7754-59 (2000)

Chemically Mediated Site-Specific Cleavage of Proteins. B. Wang, M. Lodder, J. Zhou, T.T. Baird, Jr., K.C. Brown, C.S. Craik, S.M. Hecht. J. Am. Chem. Soc., 122, 7402-7403 (2000)

Generation of Active Trypsin by Chemical Cleavage. T.T. Baird Jr., B. Wang, M. Lodder, S.M. Hecht and C.S. Craik. Tetrahedron Letters, 56, 9477-9485 (2000)

Cellular Localization of Membrane-type Serine Protease 1 and Identification of Protease Activated Receptor-2 and Single-chain Urokinase-type Plasminogen Activator as Substrates. T. Takeuchi, J.L. Harris, W. Huang, K.W. Yan, S.R. Coughlin and C.S. Craik. J. Bio. Chem., 275, 26333-42 (2000)

Functional Consequences of the Kaposi’s Sarcoma-Associated Herpesviral Protease Structure: Regulation of Activity and Dimerization by Conserved Structural Elements. K.K. Reiling, T.R. Pray, C.S. Craik, R.M. Stroud. Biochemistry, 24, 12796-803 (2000)

The Structure of the Pro-apoptotic Protease Granzyme B Reveals the Molecular Determinants of its Specificity. S. Waugh, J. Harris, R. Fletterick, and C.S. Craik Nature Structural Biology 7, 762-765 (2000)