Comparison of metalloproteinase protein and activity profiling

Analytical Biochemistry

Volumn 409, Issue 1, 2011, Pages 37-45

  Giricz, Orsi ^a,b   Lauer, Janelle L ^c,d   Fields, Gregg B ^c  

^a FLORIDA ATLANTIC UNIVERSITY   (United States)

^b ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

^c UNIVERSITY OF TEXAS HEALTH SCIENCE CENTER AT SAN ANTONIO   (United States)

^d SCRIPPS RESEARCH INSTITUTE   (United States)

Author keywords

FRET substrate assay; In situ MMP assay; Matrix metalloproteinase; MMP protein production; Protein array

Indexed keywords

CELL CULTURE; CELLS; ENERGY TRANSFER; FORSTER RESONANCE ENERGY TRANSFER; METALS; PROTEINS;

DISEASE PROGRESSION; FLUORESCENCE RESONANCE ENERGY TRANSFER; MATRIX METALLOPROTEINASES; METALLOPROTEINASE ACTIVITY; METALLOPROTEINASES; PROTEIN ARRAYS; PROTEIN PRODUCTION; PROTEOLYTIC ENZYME;

SUBSTRATES;

COLLAGENASE 3; GELATINASE A; GELATINASE B; INTERSTITIAL COLLAGENASE; MATRILYSIN; MATRIX METALLOPROTEINASE; NEUTROPHIL COLLAGENASE; STROMELYSIN; STROMELYSIN 2; TISSUE INHIBITOR OF METALLOPROTEINASE; TISSUE INHIBITOR OF METALLOPROTEINASE 1; TISSUE INHIBITOR OF METALLOPROTEINASE 2; TISSUE INHIBITOR OF METALLOPROTEINASE 4;

ARTICLE; CANCER CELL CULTURE; CELL LYSATE; CONTROLLED STUDY; ENZYME ACTIVITY; ENZYME ASSAY; ENZYME RELEASE; ENZYME SUBSTRATE; FLUORESCENCE RESONANCE ENERGY TRANSFER; GENE EXPRESSION PROFILING; HUMAN; HUMAN CELL; HYDROLYSIS; PRIORITY JOURNAL; PROTEIN MICROARRAY;

EID: 78650298121     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2010.09.040     Document Type: Article

References (75)

1. L.J. McCawley, and L.M. Matrisian Matrix metalloproteinases: they're not just for matrix anymore! Curr. Opin. Cell Biol. 13 2001 534 540
2. B. Cauwe, P.E. Van den Steen, and G. Opdenakker The biochemical, biological, and pathological kaleidoscope of cell surface substrates processed by matrix metalloproteinases Crit. Rev. Biochem. Mol. Biol. 42 2007 113 185
3. A. Page-McCaw, A.J. Ewald, and Z. Werb Matrix metalloproteinases and the regulation of tissue remodelling Nat. Rev. Mol. Cell Biol. 8 2007 221 233
4. S. Spisak, Z. Tulassay, B. Molnar, and A. Guttman Protein microchips in biomedicine and biomarker discovery Electrophoresis 28 2007 4261 4273
5. D. Kambhampati Protein Microarray Technology 2004 Wiley-VCH Weinheim, Germany
6. H. Nagase, and J.F. Woessner Jr. Matrix metalloproteinases J. Biol. Chem. 274 1999 21491 21494
7. J. Westermarck, and V.-M. Kahari Regulation of matrix metalloproteinase expression in tumor invasion FASEB J. 13 1999 781 792
8. C.G. Knight Fluorometric assays of proteolytic enzymes Methods Enzymol. 248 1995 18 34
9. A.A. Gershkovich, and V.V. Kholodovych Fluorogenic substrates for proteases based on intramolecular fluorescence energy transfer (IFETS) J. Biochem. Biophys. Methods 33 1996 135 162
10. G.B. Fields, Using fluorogenic peptide substrates to assay matrix metalloproteinases, in: I.M. Clark (Ed.), Methods in Molecular Biology, vol. 622: Matrix Metalloproteinase Protocols, 2nd ed., Humana, Totowa, NJ, 2010, pp. 393-433.
11. C. Chang, and Z. Werb The many faces of metalloproteases: cell growth, invasion, angiogenesis, and metastasis Trends Cell Biol. 11 2001 S37 S43
12. J.L. Lauer-Fields, D. Minond, K. Brew, and G.B. Fields Application of topologically constrained mini-proteins as ligands, substrates, and inhibitors Methods Mol. Biol. 386 2007 125 166
13. J.L. Lauer-Fields, T. Broder, T. Sritharan, H. Nagase, and G.B. Fields Kinetic analysis of matrix metalloproteinase triple-helicase activity using fluorogenic substrates Biochemistry 40 2001 5795 5803
14. J.L. Lauer-Fields, T. Sritharan, M.S. Stack, H. Nagase, and G.B. Fields Selective hydrolysis of triple-helical substrates by matrix metalloproteinase-2 and -9 J. Biol. Chem. 278 2003 18140 18145
15. J.L. Lauer-Fields, H. Nagase, and G.B. Fields Development of a solid-phase assay for analysis of matrix metalloproteinase activity J. Biomol. Tech. 15 2004 305 316
16. M.B. Eisen, P.T. Spellman, P.O. Brown, and D. Botstein Cluster analysis and display of genome-wide expression patterns Proc. Natl. Acad. Sci. USA 95 1998 14863 14868
17. A.B. Hamze, S. Wei, H. Bahudhanapati, S. Kota, K.R. Acharya, and K. Brew Constraining specificity in the N-domain of tissue inhibitor of metalloproteinases-1: gelatinase-selective inhibitors Protein Sci. 16 2007 1905 1913
18. H. Nagase, C.G. Fields, and G.B. Fields Design and characterization of a fluorogenic substrate selectively hydrolyzed by stromelysin 1 (matrix metalloproteinase-3) J. Biol. Chem. 269 1994 20952 20957
19. C.G. Knight, F. Willenbrock, and G. Murphy A novel coumarin-labelled peptide for sensitive continuous assays of the matrix metalloproteinases FEBS Lett. 296 1992 263 266
20. G.B. Fields, Using fluorogenic peptide substrates to assay matrix metalloproteinases, in: I.M. Clark (Ed.), Methods in Molecular Biology, vol. 151: Matrix Metalloproteinase Protocols, Humana, Totowa, NJ, 2001, pp. 495-518.
21. 2, a fluorogenic substrate with increased specificity constants for collagenases and tumor necrosis factor converting enzyme Anal. Biochem. 328 2004 166 173
22. 2 Fluorogenic Peptide Substrate IX, Product Information Sheet ES010, 2004.
23. 2 Fluorogenic Peptide Substrate II, Product Information Sheet ES002, 2004.
24. D. Minond, J.L. Lauer-Fields, H. Nagase, and G.B. Fields Matrix metalloproteinase triple-helical peptidase activities are differentially regulated by substrate stability Biochemistry 43 2004 11474 11481
25. D. Minond, J.L. Lauer-Fields, M. Cudic, C.M. Overall, D. Pei, K. Brew, R. Visse, H. Nagase, and G.B. Fields The roles of substrate thermal stability and P2 and P1′ subsite identity on matrix metalloproteinase triple-helical peptidase activity and collagen specificity J. Biol. Chem. 281 2006 38302 38313
26. D. Minond, J.L. Lauer-Fields, M. Cudic, C.M. Overall, D. Pei, K. Brew, M.L. Moss, and G.B. Fields Differentiation of secreted and membrane-type matrix metalloproteinase activities based on substitutions and interruptions of triple-helical sequences Biochemistry 46 2007 3724 3733
27. 1(I) gene expression J. Biol. Chem. 270 1995 13548 13552
28. M.E. Fini, and M.T. Girard The pattern of metalloproteinase expression by corneal fibroblasts is altered by passage in cell culture J. Cell Sci. 97 1990 373 383
29. A. Handa-Corrigan, S. Zhang, and R. Brydges Surface-active agents in animal cell cultures R.E. Spier, J.B. Griffiths, Animal Cell Biotechnology 1992 Academic Press London 279 301
30. v3, 8-10 is involved in cytoskeleton-mediated tumor cell migration and matrix metalloproteinase (MMP-9) association in metastatic breast cancer cells J. Cell. Physiol. 176 1998 206 215
31. Q. Yu, and I. Stamenkovic Localization of matrix metalloproteinase 9 to the cell surface provides a mechanism for CD44-mediated tumor invasion Genes Dev. 13 1999 35 48
32. Q. Yu, and I. Stamenkovic Cell surface-localized matrix metalloproteinase-9 proteolytically activates TGF-β and promotes tumor invasion and angiogenesis Genes Dev. 14 2000 163 176
33. H. Mori, T. Tomari, I. Koshifumi, H. Sato, H. Tojo, I. Yana, and M. Seiki CD44 directs membrane-type I matrix metalloproteinase to lamellipodia by associating with its hemopexin-like domain EMBO J. 21 2002 3949 3959
34. W.-H. Yu, J.F. Woessner Jr., J.D. McNeish, and I. tamenkovic CD44 anchors the assembly of matrilysin/MMP-7 with heparin-binding epidermal growth factor percursor and ErbB4 and regulates female reproductive organ remodeling Genes Dev. 16 2002 307 323
35. N. Suenga, H. Mori, Y. Itoh, and M. Seiki CD44 binding through the hemopexin-like domain is critical for its shedding by membrane-type 1 matrix metalloproteinase Oncogene 24 2005 859 868
36. D. Naor, S. Nedvetzki, I. Golan, L. Melnik, and Y. Faitelson CD44 in cancer Crit. Rev. Clin. Lab. Sci. 39 2002 527 579
37. M. Goebeler, D. Kaufmann, E.B. Brocker, and C.E. Klein Migration of highly aggressive melanoma cells on hyaluronic acid is associated with functional changes, increased turnover, and shedding of CD44 receptors J. Cell Sci. 109 1996 1957 1964
38. 3 Cell 85 1996 683 693 (Pubitemid 26181048)
39. J.F. Woessner, and H. Nagase Matrix Metalloproteinases and TIMPs 2000 Oxford University Press Oxford, UK
40. 1 integrin upon release from keratinocytes migrating on type I collagen J. Biol. Chem. 276 2001 29368 29374
41. 2 integrin I domain/procollagenase-1 (matrix metalloproteinase-1) interaction J. Biol. Chem. 276 2001 29375 29381
42. J.L. Lauer-Fields, J.K. Whitehead, S. Li, R.P. Hammer, K. Brew, and G.B. Fields Selective modulation of matrix metalloproteinase 9 (MMP-9) functions via exosite inhibition J. Biol. Chem. 283 2008 20087 20095
43. J.L. Lauer-Fields, M.J. Chalmers, S.A. Busby, D. Minond, P.R. Griffin, and G.B. Fields Identification of specific hemopexin-like domain residues that facilitate matrix metalloproteinase collagenolytic activity J. Biol. Chem. 284 2009 24017 24024
44. J. George, M.L. Teear, C.G. Norey, and D.D. Burns Evaluation of an imaging platform during the development of a FRET protease assay J. Biomol. Screen. 8 2003 72 80
45. J.-M. Foidart, and R.J. Muschel Proteases and Their Inhibitors in Cancer Metastasis 2004 Kluwer Academic Dordrecht, Netherlands
46. T. Murate, K. Yamashita, H. Ohashi, Y. Kagami, K. Tsushita, T. Kinoshita, T. Hotta, H. Saito, S. Yoshida, and K.J. Mori Erythroid potentiating activity of tissue inhibitor of metalloproteinases on the differentiation of erythropoietin-responsive mouse erythroleukemia cell line, ELM-I-1-3, is closely related to its cell growth potentiating activity Exp. Hematol. 21 1993 169 176
47. W.G. Stetler-Stevenson Tissue inhibitors of metalloproteinases in cell signaling: metalloproteinase-independent biological activities Sci. Signal. 1 2008 re6
48. T.I. Ricca, G. Liang, A.P. Suenaga, S.W. Han, P.A. Jones, and M.G. Jasiulionis Tissue inhibitor of metalloproteinase 1 expression associated with gene demethylation confers anoikis resistance in early phases of melanocyte malignant transformation Transl. Oncol. 2 2009 329 340
49. M.L. Corcoran, and W.G. Stetler-Stevenson Tissue inhibitor of metalloproteinase-2 stimulates fibroblast proliferation via a cAMP-dependent mechanism J. Biol. Chem. 270 1995 13453 13459
50. B.M. Kräling, D.G. Wiederschain, T. Boehm, M. Rehn, J.B. Mulliken, and M.A. Moses The role of matrix metalloproteinase activity in the maturation of human capillary endothelial cells in vitro J. Cell Sci. 112 1999 1599 1609
51. K. Yamashita, M. Suzuki, H. Iwata, T. Koike, M. Hamaguchi, A. Shinagawa, T. Noguchi, and T. Hayakawa Tyrosine phosphorylation is crucial for growth signaling by tissue inhibitors of metalloproteinases (TIMP-1 and TIMP-2) FEBS Lett. 396 1996 103 107
52. T. Wanga, K. Yamashita, K. Iwata, and T. Hayakawa Both tissue inhibitors of metalloproteinases-1 (TIMP-1) and TIMP-2 activate Ras but through different pathways Biochem. Biophys. Res. Commun. 296 2002 201 205
53. A. Saghatelian, N. Jessani, A. Joseph, M. Humphrey, and B.F. Cravatt Activity-based probes for the proteomic profiling of metalloproteases Proc. Natl. Acad. Sci. USA 101 2004 10000 10005
54. E.W.S. Chan, S. Chattopadhaya, R.C. Panicker, X. Huang, and S.Q. Yao Developing photoactive affinity probes for proteomic profiling: hydroxamate-based probes for metalloproteases J. Am. Chem. Soc. 126 2004 14435 14446
55. J. Wang, M. Uttamchandani, J. Li, M. Hu, and S.Q. Yao "Click" synthesis of small molecule probes for activity-based fingerprinting of matrix metalloproteases Chem. Commun. 2006 3783 3785
56. J. Wang, M. Uttamchandani, L.P. Sun, and S.Q. Yao Activity-based high-throughput profiling of metalloprotease inhibitors using small molecule microarrays Chem. Commun. 2006 717 719
57. J. Wang, M. Uttamchandani, J. Li, M. Hu, and S.Q. Yao Rapid assembly of matrix metalloproteinase inhibitors using click chemistry Org. Lett. 8 2006 3821 3824
58. S.A. Sieber, S. Niessen, H.S. Hoover, and B.F. Cravatt Proteomic profiling of metalloprotease activities with cocktails of active-site probes Nat. Chem. Biol. 2 2006 274 281
59. B. Beekman, B. Van El, J.W. Drijfhout, H.K. Ronday, and J.M. TeKoppele Highly increased levels of active stromelysin in rheumatoid synovial fluid determined by a selective fluorogenic assay FEBS Lett. 418 1997 305 309
60. M. Itoh, M. Osaka, T. Chiba, K. Masuda, T. Akizawa, M. Yoshioka, and M. Seiki Flow injection analysis for measurement of activity of matrix metalloproteinase-7 (MMP-7) J. Pharm. Biomed. Anal. 15 1997 1417 1426
61. 1 integrin and CD44 triple-helical ligands derived from type IV collagen J. Biol. Chem. 279 2004 43503 43513
62. C. Bremer, S. Bredow, U. Mahmood, R. Weissleder, and C.H. Tung Optical imaging of matrix metalloproteinase-2 activity in tumors: feasibility study in a mouse model Radiology 221 2001 523 529
63. J.O. McIntyre, B. Fingleton, K.S. Wells, D.W. Piston, C.C. Lynch, S. Gautam, and L.M. Matrisian Development of a novel fluorogenic proteolytic beacon for in vivo detection and imaging of tumor-associated matrix metalloproteinase-7 activity Biochem. J. 377 2004 617 628
64. M. Lepage, W.C. Dow, M. Melchior, Y. You, B. Fingleton, C.C. Quarles, C. Pépin, J.C. Gore, L.M. Matrisian, and J.O. McIntyre Noninvasive detection of matrix metalloproteinase activity in vivo using a novel magnetic resonance imaging contrast agent with a solubility switch Mol. Imaging 6 2007 393 403
65. R.I. Scherer, M.N. VanSaun, J.O. McIntyre, and L.M. Matrisian Optical imaging of matrix metalloproteinase-7 activity in vivo using a proteolytic nanobeacon Mol. Imaging 7 2008 118 131
66. G.A. Watkins, E.F. Jones, M.S. Shell, H.F. VanBrocklin, M.-H. Pan, S.M. Hanrahan, J.J. Feng, J. He, N.E. Sounni, K.A. Dill, C.H. Contag, L.M. Coussens, and B.L. Franc Development of an optimized activatable MMP-14 targeted SPECT imaging probe Bioorg. Med. Chem. 17 2009 653 659
67. A. Cobos-Correa, J.B. Trojanek, S. Diemer, M.A. Mall, and C. Schultz Membrane-bound FRET probe visualizes MMP12 activity in pulmonary inflammation Nat. Chem. Biol. 5 2009 628 630
68. C. Grierson, D. Miller, P. LaPan, and J. Brady Utility of combining MMP-9 enzyme-linked immunosorbent assay and MMP-9 activity assay data to monitor plasma enzyme specific activity Anal. Biochem. 404 2010 232 234
69. Y.V. Sungurov, N.L. Eremeev, A.T. Lebedev, O.A. Maloshitskaya, G.N. Rudenskaya, and S.A. Semenova A mass-spectrometic approach ot primary screening of collagenolytic enzymes Russ. J. Bioorg. Chem. 34 2008 353 358
70. Y. Wang, D.V. Zagorevski, M.R. Lennartz, D.J. Loegering, and J.A. Stenken Detection of in vivo matrix metalloproteinase activity using microdialysis sampling and liquid chromatography/mass spectrometry Anal. Chem. 81 2009 9961 9971
71. Y.P. Kim, B.S. Lee, E. Kim, I.S. Choi, D.W. Moon, T.G. Lee, and H.S. Kim Activity-based assay of matrix metalloproteinase on nonbiofouling surfaces using time-of-flight secondary ion mass spectrometry Anal. Chem. 80 2008 5094 5102
72. G. Grasso, R. D'Agata, E. Rizzarelli, G. Spoto, L. D'Andrea, C. Pedone, A. Picardi, A. Romanelli, M. Fragai, and K.J. Yeo Activity of anchored human matrix metalloproteinase-1 catalytic domain on Au(III) surfaces monitored by ESI-MS J. Mass Spectrom. 40 2005 1565 1571
73. H. Nordström, T. Gossas, M. Hämäläinen, P. Källblad, S. Nyström, H. Wallberg, and U.H. Danielson Identification of MMP-12 inhibitors by using biosensor-based screening of a fragment library J. Med. Chem. 51 2008 3449 3459
74. X. Ma, and E.C. Chan On-line chromatographic screening of matrix metalloproteinase inhibitors using immobilized MMP-9 enzyme reactor J. Chromatogr. B 878 2010 1777 1783
75. R. Freije, T. Klein, B. Ooms, H.F. Kauffman, and R. Bischoff An integrated high-performance liquid chromatography-mass spectrometry system for the activity-dependent analysis of matrix metalloproteases J. Chromatogr. A 1189 2008 417 425