1pbh Citations

Crystal structures of human procathepsin B at 3.2 and 3.3 Angstroms resolution reveal an interaction motif between a papain-like cysteine protease and its propeptide.

FEBS Lett 384 211-4 (1996)
Cited: 75 times
EuropePMC logo PMID: 8617355

Abstract

A wild-type human procathepsin B was expressed, crystallized in two crystal forms and its crystal structure determined at 3.2 and 3.3 Angstroms resolution. The structure reveals that the propeptide folds on the cathepsin B surface, shielding the enzyme active site from exposure to solvent. The structure of the enzymatically active domains is virtually identical to that of the native enzyme [Musil et al. (1991) EMBO J. 10, 2321-2330]: the main difference is that the occluding loop residues are lifted above the body of the mature enzyme, supporting the propeptide structure.

Articles - 1pbh mentioned but not cited (3)

  1. A base measure of precision for protein stability predictors: structural sensitivity. Caldararu O, Blundell TL, Kepp KP. BMC Bioinformatics 22 88 (2021)
  2. The structure of the cysteine protease and lectin-like domains of Cwp84, a surface layer-associated protein from Clostridium difficile. Bradshaw WJ, Kirby JM, Thiyagarajan N, Chambers CJ, Davies AH, Roberts AK, Shone CC, Acharya KR. Acta Crystallogr D Biol Crystallogr 70 1983-1993 (2014)
  3. Insight towards the effect of the multi basic cleavage site of SARS-CoV-2 spike protein on cellular proteases. Shokeen K, Pandey S, Shah M, Kumar S. Virus Res 318 198845 (2022)


Reviews citing this publication (17)

  1. Cysteine cathepsins: from structure, function and regulation to new frontiers. Turk V, Stoka V, Vasiljeva O, Renko M, Sun T, Turk B, Turk D. Biochim Biophys Acta 1824 68-88 (2012)
  2. Lysosomal cysteine proteases: facts and opportunities. Turk V, Turk B, Turk D. EMBO J 20 4629-4633 (2001)
  3. The lysosomal cysteine proteases. McGrath ME. Annu Rev Biophys Biomol Struct 28 181-204 (1999)
  4. Revised definition of substrate binding sites of papain-like cysteine proteases. Turk D, Guncar G, Podobnik M, Turk B. Biol Chem 379 137-147 (1998)
  5. Cathepsins and compartmentalization in antigen presentation. Riese RJ, Chapman HA. Curr Opin Immunol 12 107-113 (2000)
  6. Cysteine Proteases: Modes of Activation and Future Prospects as Pharmacological Targets. Verma S, Dixit R, Pandey KC. Front Pharmacol 7 107 (2016)
  7. Proregion structure of members of the papain superfamily. Mode of inhibition of enzymatic activity. Cygler M, Mort JS. Biochimie 79 645-652 (1997)
  8. Cathepsin B in neurodegeneration of Alzheimer's disease, traumatic brain injury, and related brain disorders. Hook V, Yoon M, Mosier C, Ito G, Podvin S, Head BP, Rissman R, O'Donoghue AJ, Hook G. Biochim Biophys Acta Proteins Proteom 1868 140428 (2020)
  9. Structural aspects of activation pathways of aspartic protease zymogens and viral 3C protease precursors. Khan AR, Khazanovich-Bernstein N, Bergmann EM, James MN. Proc Natl Acad Sci U S A 96 10968-10975 (1999)
  10. Proteolysis and antigen presentation by MHC class II molecules. Bryant PW, Lennon-Duménil AM, Fiebiger E, Lagaudrière-Gesbert C, Ploegh HL. Adv Immunol 80 71-114 (2002)
  11. Cysteine cathepsin activity regulation by glycosaminoglycans. Novinec M, Lenarčič B, Turk B. Biomed Res Int 2014 309718 (2014)
  12. The proteasome: a macromolecular assembly designed to confine proteolysis to a nanocompartment. Baumeister W, Cejka Z, Kania M, Seemüller E. Biol Chem 378 121-130 (1997)
  13. Regulation of human cathepsin B by alternative mRNA splicing: homeostasis, fatal errors and cell death. Baici A, Müntener K, Willimann A, Zwicky R. Biol Chem 387 1017-1021 (2006)
  14. An active zymogen: unravelling the mystery of tissue-type plasminogen activator. Stubbs MT, Renatus M, Bode W. Biol Chem 379 95-103 (1998)
  15. Macrophage derived cystatin B/cathepsin B in HIV replication and neuropathogenesis. Rivera LE, Colon K, Cantres-Rosario YM, Zenon FM, Melendez LM. Curr HIV Res 12 111-120 (2014)
  16. Mechanisms Applied by Protein Inhibitors to Inhibit Cysteine Proteases. Tušar L, Usenik A, Turk B, Turk D. Int J Mol Sci 22 997 (2021)
  17. The Role of Cysteine Protease Cathepsins B, H, C, and X/Z in Neurodegenerative Diseases and Cancer. Stoka V, Vasiljeva O, Nakanishi H, Turk V. Int J Mol Sci 24 15613 (2023)

Articles citing this publication (55)

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  2. Crystal structure of a deubiquitinating enzyme (human UCH-L3) at 1.8 A resolution. Johnston SC, Larsen CN, Cook WJ, Wilkinson KD, Hill CP. EMBO J 16 3787-3796 (1997)
  3. Structure of human dipeptidyl peptidase I (cathepsin C): exclusion domain added to an endopeptidase framework creates the machine for activation of granular serine proteases. Turk D, Janjić V, Stern I, Podobnik M, Lamba D, Dahl SW, Lauritzen C, Pedersen J, Turk V, Turk B. EMBO J 20 6570-6582 (2001)
  4. Crystal structure of MHC class II-associated p41 Ii fragment bound to cathepsin L reveals the structural basis for differentiation between cathepsins L and S. Guncar G, Pungercic G, Klemencic I, Turk V, Turk D. EMBO J 18 793-803 (1999)
  5. A slow maturation of a cysteine protease with a granulin domain in the vacuoles of senescing Arabidopsis leaves. Yamada K, Matsushima R, Nishimura M, Hara-Nishimura I. Plant Physiol 127 1626-1634 (2001)
  6. Crystal structure of porcine cathepsin H determined at 2.1 A resolution: location of the mini-chain C-terminal carboxyl group defines cathepsin H aminopeptidase function. Guncar G, Podobnik M, Pungercar J, Strukelj B, Turk V, Turk D. Structure 6 51-61 (1998)
  7. Filoviruses require endosomal cysteine proteases for entry but exhibit distinct protease preferences. Misasi J, Chandran K, Yang JY, Considine B, Filone CM, Côté M, Sullivan N, Fabozzi G, Hensley L, Cunningham J. J Virol 86 3284-3292 (2012)
  8. Crystal structure of the wild-type human procathepsin B at 2.5 A resolution reveals the native active site of a papain-like cysteine protease zymogen. Podobnik M, Kuhelj R, Turk V, Turk D. J Mol Biol 271 774-788 (1997)
  9. Neutrophil elastase up-regulates cathepsin B and matrix metalloprotease-2 expression. Geraghty P, Rogan MP, Greene CM, Boxio RM, Poiriert T, O'Mahony M, Belaaouaj A, O'Neill SJ, Taggart CC, McElvaney NG. J Immunol 178 5871-5878 (2007)
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  13. Glycosaminoglycans facilitate procathepsin B activation through disruption of propeptide-mature enzyme interactions. Caglic D, Pungercar JR, Pejler G, Turk V, Turk B. J Biol Chem 282 33076-33085 (2007)
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  15. Probing the specificity of cysteine proteinases at subsites remote from the active site: analysis of P4, P3, P2' and P3' variations in extended substrates. Portaro FC, Santos AB, Cezari MH, Juliano MA, Juliano L, Carmona E. Biochem J 347 Pt 1 123-129 (2000)
  16. Autocatalytic processing of procathepsin B is triggered by proenzyme activity. Pungercar JR, Caglic D, Sajid M, Dolinar M, Vasiljeva O, Pozgan U, Turk D, Bogyo M, Turk V, Turk B. FEBS J 276 660-668 (2009)
  17. The inhibition of cathepsin S by its propeptide--specificity and mechanism of action. Maubach G, Schilling K, Rommerskirch W, Wenz I, Schultz JE, Weber E, Wiederanders B. Eur J Biochem 250 745-750 (1997)
  18. Acidic pH as a physiological regulator of human cathepsin L activity. Turk B, Dolenc I, Lenarcic B, Krizaj I, Turk V, Bieth JG, Björk I. Eur J Biochem 259 926-932 (1999)
  19. Crystal structure of wild-type human procathepsin K. Sivaraman J, Lalumière M, Ménard R, Cygler M. Protein Sci 8 283-290 (1999)
  20. The dimer interface of the membrane type 1 matrix metalloproteinase hemopexin domain: crystal structure and biological functions. Tochowicz A, Goettig P, Evans R, Visse R, Shitomi Y, Palmisano R, Ito N, Richter K, Maskos K, Franke D, Svergun D, Nagase H, Bode W, Itoh Y. J Biol Chem 286 7587-7600 (2011)
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  22. Two-step mechanism of inhibition of cathepsin B by cystatin C due to displacement of the proteinase occluding loop. Nycander M, Estrada S, Mort JS, Abrahamson M, Björk I. FEBS Lett 422 61-64 (1998)
  23. Regulatory elements within the prodomain of Falcipain-2, a cysteine protease of the malaria parasite Plasmodium falciparum. Pandey KC, Barkan DT, Sali A, Rosenthal PJ. PLoS One 4 e5694 (2009)
  24. Cystatin inhibition of cathepsin B requires dislocation of the proteinase occluding loop. Demonstration By release of loop anchoring through mutation of his110. Pavlova A, Krupa JC, Mort JS, Abrahamson M, Björk I. FEBS Lett 487 156-160 (2000)
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  26. Subsite specificity of trypanosomal cathepsin L-like cysteine proteases. Probing the S2 pocket with phenylalanine-derived amino acids. Lecaille F, Authié E, Moreau T, Serveau C, Gauthier F, Lalmanach G. Eur J Biochem 268 2733-2741 (2001)
  27. A Kunitz-type protease inhibitor regulates programmed cell death during flower development in Arabidopsis thaliana. Boex-Fontvieille E, Rustgi S, Reinbothe S, Reinbothe C. J Exp Bot 66 6119-6135 (2015)
  28. Crystal structure of NS-134 in complex with bovine cathepsin B: a two-headed epoxysuccinyl inhibitor extends along the entire active-site cleft. Stern I, Schaschke N, Moroder L, Turk D. Biochem J 381 511-517 (2004)
  29. Substrate/propeptide-derived endo-epoxysuccinyl peptides as highly potent and selective cathepsin B inhibitors. Schaschke N, Assfalg-Machleidt I, Machleidt W, Moroder L. FEBS Lett 421 80-82 (1998)
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  39. Letter Caught in the act: the crystal structure of cleaved cathepsin L bound to the active site of Cathepsin L. Sosnowski P, Turk D. FEBS Lett 590 1253-1261 (2016)
  40. The Ionic and hydrophobic interactions are required for the auto activation of cysteine proteases of Plasmodium falciparum. Sundararaj S, Singh D, Saxena AK, Vashisht K, Sijwali PS, Dixit R, Pandey KC. PLoS One 7 e47227 (2012)
  41. Cathepsin B Is Inhibited in Mutant Cells Selected during Persistent Reovirus Infection. Ebert DH, Kopecky-Bromberg SA, Dermody TS. J Biol Chem 279 3837-3851 (2004)
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  44. Cathepsins X and B display distinct activity profiles that can be exploited for inhibitor design. Ménard R, Therrien C, Lachance P, Sulea T, Qo H, Alvarez-Hernandez AD, Roush WR. Biol Chem 382 839-845 (2001)
  45. Inhibition of rat liver cathepsins B and L by the peptide aldehyde benzyloxycarbonyl-leucyl-leucyl-leucinal and its analogues. Ito H, Watanabe M, Kim YT, Takahashi K. J Enzyme Inhib Med Chem 24 279-286 (2009)
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  50. Rational Design of a Humanized Antibody Inhibitor of Cathepsin B. Dai Z, Cheng Q, Zhang Y. Biochemistry 59 1420-1427 (2020)
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  52. Structural characterization of the hypothetical protein Lpg2622, a new member of the C1 family peptidases from Legionella pneumophila. Gong X, Zhao X, Zhang W, Wang J, Chen X, Hameed MF, Zhang N, Ge H. FEBS Lett 592 2798-2810 (2018)
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  54. Molecular identification and functional characterization of the cathepsin B gene (Ab-cb-1) in the plant parasitic nematode Aphelenchoides besseyi. Wang HL, Cheng X, Ding SW, Wang DW, Chen C, Xu CL, Xie H. PLoS One 13 e0199935 (2018)
  55. Historical Article Vito Turk--30 years of research on cysteine proteases and their inhibitors. Turk B, Fritz H. Biol Chem 384 833-836 (2003)