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Items: 1 to 20 of 58

1.

CleavPredict: A Platform for Reasoning about Matrix Metalloproteinases Proteolytic Events.

Kumar S, Ratnikov BI, Kazanov MD, Smith JW, Cieplak P.

PLoS One. 2015 May 21;10(5):e0127877. doi: 10.1371/journal.pone.0127877. eCollection 2015. Erratum in: PLoS One. 2015;10(6):e0131952.

2.

Basis for substrate recognition and distinction by matrix metalloproteinases.

Ratnikov BI, Cieplak P, Gramatikoff K, Pierce J, Eroshkin A, Igarashi Y, Kazanov M, Sun Q, Godzik A, Osterman A, Stec B, Strongin A, Smith JW.

Proc Natl Acad Sci U S A. 2014 Oct 7;111(40):E4148-55. doi: 10.1073/pnas.1406134111. Epub 2014 Sep 22.

3.

Comparative proteomic analysis of a cytosolic fraction from β3 integrin-deficient cells.

Bush JA, Kitaura H, Ma Y, Teitelbaum SL, Ross FP, Smith JW.

Cancer Genomics Proteomics. 2012 Jan;9(1):1-13.

4.

Crystal and solution structures of a prokaryotic M16B peptidase: an open and shut case.

Aleshin AE, Gramatikova S, Hura GL, Bobkov A, Strongin AY, Stec B, Tainer JA, Liddington RC, Smith JW.

Structure. 2009 Nov 11;17(11):1465-75. doi: 10.1016/j.str.2009.09.009.

5.

Inflammatory proprotein convertase-matrix metalloproteinase proteolytic pathway in antigen-presenting cells as a step to autoimmune multiple sclerosis.

Shiryaev SA, Remacle AG, Savinov AY, Chernov AV, Cieplak P, Radichev IA, Williams R, Shiryaeva TN, Gawlik K, Postnova TI, Ratnikov BI, Eroshkin AM, Motamedchaboki K, Smith JW, Strongin AY.

J Biol Chem. 2009 Oct 30;284(44):30615-26. doi: 10.1074/jbc.M109.041244. Epub 2009 Sep 2.

6.

High throughput substrate phage display for protease profiling.

Ratnikov B, Cieplak P, Smith JW.

Methods Mol Biol. 2009;539:93-114. doi: 10.1007/978-1-60327-003-8_6.

7.

Matrix metalloproteinase proteolysis of the myelin basic protein isoforms is a source of immunogenic peptides in autoimmune multiple sclerosis.

Shiryaev SA, Savinov AY, Cieplak P, Ratnikov BI, Motamedchaboki K, Smith JW, Strongin AY.

PLoS One. 2009;4(3):e4952. doi: 10.1371/journal.pone.0004952. Epub 2009 Mar 20.

8.

PMAP: databases for analyzing proteolytic events and pathways.

Igarashi Y, Heureux E, Doctor KS, Talwar P, Gramatikova S, Gramatikoff K, Zhang Y, Blinov M, Ibragimova SS, Boyd S, Ratnikov B, Cieplak P, Godzik A, Smith JW, Osterman AL, Eroshkin AM.

Nucleic Acids Res. 2009 Jan;37(Database issue):D611-8. doi: 10.1093/nar/gkn683. Epub 2008 Oct 8.

9.

Inhibition of fatty-acid synthase induces caspase-8-mediated tumor cell apoptosis by up-regulating DDIT4.

Knowles LM, Yang C, Osterman A, Smith JW.

J Biol Chem. 2008 Nov 14;283(46):31378-84. doi: 10.1074/jbc.M803384200. Epub 2008 Sep 16.

10.

Bioengineering a humanized acne microenvironment model: proteomics analysis of host responses to Propionibacterium acnes infection in vivo.

Nakatsuji T, Shi Y, Zhu W, Huang CP, Chen YR, Lee DY, Smith JW, Zouboulis CC, Gallo RL, Huang CM.

Proteomics. 2008 Aug;8(16):3406-15. doi: 10.1002/pmic.200800044. Review.

11.

Substrate cleavage analysis of furin and related proprotein convertases. A comparative study.

Remacle AG, Shiryaev SA, Oh ES, Cieplak P, Srinivasan A, Wei G, Liddington RC, Ratnikov BI, Parent A, Desjardins R, Day R, Smith JW, Lebl M, Strongin AY.

J Biol Chem. 2008 Jul 25;283(30):20897-906. doi: 10.1074/jbc.M803762200. Epub 2008 May 27.

12.

The two-component NS2B-NS3 proteinase represses DNA unwinding activity of the West Nile virus NS3 helicase.

Chernov AV, Shiryaev SA, Aleshin AE, Ratnikov BI, Smith JW, Liddington RC, Strongin AY.

J Biol Chem. 2008 Jun 20;283(25):17270-8. doi: 10.1074/jbc.M801719200. Epub 2008 Apr 28.

13.

Competitive interactions of collagen and a jararhagin-derived disintegrin peptide with the integrin alpha2-I domain.

Lambert LJ, Bobkov AA, Smith JW, Marassi FM.

J Biol Chem. 2008 Jun 13;283(24):16665-72. doi: 10.1074/jbc.M710483200. Epub 2008 Apr 16.

14.

Structure-based mutagenesis identifies important novel determinants of the NS2B cofactor of the West Nile virus two-component NS2B-NS3 proteinase.

Radichev I, Shiryaev SA, Aleshin AE, Ratnikov BI, Smith JW, Liddington RC, Strongin AY.

J Gen Virol. 2008 Mar;89(Pt 3):636-41. doi: 10.1099/vir.0.83359-0.

PMID:
18272753
15.

HTS identifies novel and specific uncompetitive inhibitors of the two-component NS2B-NS3 proteinase of West Nile virus.

Johnston PA, Phillips J, Shun TY, Shinde S, Lazo JS, Huryn DM, Myers MC, Ratnikov BI, Smith JW, Su Y, Dahl R, Cosford ND, Shiryaev SA, Strongin AY.

Assay Drug Dev Technol. 2007 Dec;5(6):737-50. doi: 10.1089/adt.2007.101.

PMID:
18181690
16.

Proteolysis of the membrane type-1 matrix metalloproteinase prodomain: implications for a two-step proteolytic processing and activation.

Golubkov VS, Chekanov AV, Shiryaev SA, Aleshin AE, Ratnikov BI, Gawlik K, Radichev I, Motamedchaboki K, Smith JW, Strongin AY.

J Biol Chem. 2007 Dec 14;282(50):36283-91. Epub 2007 Oct 15.

17.

Profiling constitutive proteolytic events in vivo.

Timmer JC, Enoksson M, Wildfang E, Zhu W, Igarashi Y, Denault JB, Ma Y, Dummitt B, Chang YH, Mast AE, Eroshkin A, Smith JW, Tao WA, Salvesen GS.

Biochem J. 2007 Oct 1;407(1):41-8.

18.

Targeting host cell furin proprotein convertases as a therapeutic strategy against bacterial toxins and viral pathogens.

Shiryaev SA, Remacle AG, Ratnikov BI, Nelson NA, Savinov AY, Wei G, Bottini M, Rega MF, Parent A, Desjardins R, Fugere M, Day R, Sabet M, Pellecchia M, Liddington RC, Smith JW, Mustelin T, Guiney DG, Lebl M, Strongin AY.

J Biol Chem. 2007 Jul 20;282(29):20847-53. Epub 2007 May 30.

19.

Switching the substrate specificity of the two-component NS2B-NS3 flavivirus proteinase by structure-based mutagenesis.

Shiryaev SA, Ratnikov BI, Aleshin AE, Kozlov IA, Nelson NA, Lebl M, Smith JW, Liddington RC, Strongin AY.

J Virol. 2007 May;81(9):4501-9. Epub 2007 Feb 14.

20.

Expression and purification of a two-component flaviviral proteinase resistant to autocleavage at the NS2B-NS3 junction region.

Shiryaev SA, Aleshin AE, Ratnikov BI, Smith JW, Liddington RC, Strongin AY.

Protein Expr Purif. 2007 Apr;52(2):334-9. Epub 2006 Dec 1.

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