| Cysteine Peptidase |
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Crystal structure of the cysteine peptidase papain in complex with its covalent inhibitor E-64. Rendered from PDB 1PE6
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| Identifiers |
| Symbol |
Peptidase_C1 |
| Pfam |
PF00112 |
| Pfam clan |
CL0125 |
| InterPro |
IPR000668 |
| SMART |
SM00645 |
| PROSITE |
PDOC00126 |
| MEROPS |
C1 |
| SCOP |
1aec |
| SUPERFAMILY |
1aec |
| OPM superfamily |
420 |
| OPM protein |
1m6d |
| Available protein structures: |
| Pfam |
structures |
| PDB |
RCSB PDB; PDBe; PDBj |
| PDBsum |
structure summary |
|
Cysteine proteases, also known as thiol proteases, are enzymes that degrade proteins. These proteases share a common catalytic mechanism that involves a nucleophilic cysteine thiol in a catalytic triad or dyad.
Cysteine proteases are commonly encountered in fruits including the papaya, pineapple, fig and kiwifruit. The proportion of protease tends to be higher when the fruit is unripe. In fact, dozens of latices of different plant families are known to contain cysteine proteases.[1] Cysteine proteases are used as an ingredient in meat tenderizers.
Contents
- 1 Classification
- 2 Catalytic mechanism
- 3 Biological importance
- 4 Regulation
- 5 Uses
- 5.1 Potential pharmaceuticals
- 5.2 Other
- 6 See also
- 7 References
- 8 External links
Classification
The MEROPS protease classification system counts 14 superfamilies plus several currently unassigned families (as of 2013) each containing many families. Each superfamily uses the catalytic triad or dyad in a different protein fold and so represent convergent evolution of the catalytic mechanism.
For superfamilies, P = superfamily containing a mixture of nucleophile class families, C = purely cysteine proteases. superfamily. Within each superfamily, families are designated by their catalytic nucleophile (C = cysteine proteases).
Families of Cysteine proteases
| Superfamily |
Families |
Examples |
| CA |
C1, C2, C6, C10, C12, C16, C19, C28, C31, C32, C33, C39, C47, C51, C54, C58, C64,
C65, C66, C67, C70, C71, C76, C78, C83, C85, C86, C87, C93, C96, C98, C101
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Papain (Carica papaya),[2] bromelain (Ananas comosus), cathepsin K (liverwort)[3] and calpain (Homo sapiens)[4] |
| CD |
C11, C13, C14, C25, C50, C80, C84 |
Caspase-1 (Rattus norvegicus) and separase (Saccharomyces cerevisiae) |
| CE |
C5, C48, C55, C57, C63, C79 |
Adenain (human adenovirus type 2) |
| CF |
C15 |
Pyroglutamyl-peptidase I (Bacillus amyloliquefaciens) |
| CL |
C60, C82 |
Sortase A (Staphylococcus aureus) |
| CM |
C18 |
Hepatitis C virus peptidase 2 (hepatitis C virus) |
| CN |
C9 |
Sindbis virus-type nsP2 peptidase (sindbis virus) |
| CO |
C40 |
Dipeptidyl-peptidase VI (Lysinibacillus sphaericus) |
| CP |
C97 |
DeSI-1 peptidase (Mus musculus) |
| PA |
C3, C4, C24, C30, C37, C62, C74, C99 |
TEV protease (Tobacco etch virus) |
| PB |
C44, C45, C59, C69, C89, C95 |
Amidophosphoribosyltransferase precursor (Homo sapiens) |
| PC |
C26, C56 |
Gamma-glutamyl hydrolase (Rattus norvegicus) |
| PD |
C46 |
Hedgehog protein (Drosophila melanogaster) |
| PE |
P1 |
DmpA aminopeptidase (Ochrobactrum anthropi) |
| unassigned |
C7, C8, C21, C23, C27, C36, C42, C53, C75 |
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Catalytic mechanism
Reaction mechanism of the cysteine protease mediated cleavage of a peptide bond.
See also: catalytic triad
The first step in the reaction mechanism by which cysteine proteases catalyze the hydrolysis of peptide bonds is deprotonation of a thiol in the enzyme's active site by an adjacent amino acid with a basic side chain, usually a histidine residue. The next step is nucleophilic attack by the deprotonated cysteine's anionic sulfur on the substrate carbonyl carbon. In this step, a fragment of the substrate is released with an amine terminus, the histidine residue in the protease is restored to its deprotonated form, and a thioester intermediate linking the new carboxy-terminus of the substrate to the cysteine thiol is formed. Therefore, they are also sometimes referred to as thiol proteases. The thioester bond is subsequently hydrolyzed to generate a carboxylic acid moiety on the remaining substrate fragment, while regenerating the free enzyme.
Biological importance
Cysteine proteases play multi-faceted roles, virtually in every aspect of physiology and development. In plants they are important in growth and development and in accumulation and mobilization of storage proteins such as in seeds. In addition, they are involved in signalling pathways and in the response to biotic and abiotic stresses.[5] In humans and other animals, they are responsible for senescence and apoptosis (programmed cell death), MHC class II immune responses, prohormone processing, and extracellular matrix remodeling important to bone development. The ability of macrophages and other cells to mobilize elastolytic cysteine proteases to their surfaces under specialized conditions may also lead to accelerated collagen and elastin degradation at sites of inflammation in diseases such as atherosclerosis and emphysema.[6] Several viruses (e.g. polio, hepatitis C) express their entire genome as a singe massive polyprotein and use a protease to cleave it into functional units (e.g. Tobacco Etch Virus protease).
Regulation
Proteases are usually synthesized as large precursor proteins called zymogens, such as the serine protease precursors trypsinogen and chymotrypsinogen, and the aspartic protease precursor pepsinogen. The protease is activated by removal of an inhibitory segment or protein. Activation occurs once the protease is delivered to a specific intracellular compartment (e.g. lysosome) or extracellular environment (e.g. stomach). This system prevents the cell that produces the protease from being damaged by it.
Protease inhibitors are usually proteins with domains that enter or block a protease active site to prevent substrate access. In competitive inhibition, the inhibitor binds to the active site, thus preventing enzyme-substrate interaction. In non-competitive inhibition, the inhibitor binds to an allosteric site, which alters the active site and makes it inaccessible to the substrate.
Examples of protease inhibitors include:
Uses
Potential pharmaceuticals
Currently there is no widespread use of cysteine proteases as approved and effective anthelmintics but research into the subject is a promising field of study. Plant cysteine proteases isolated from these plants have been found to have high proteolytic activities that are known to digest nematode cuticles, with very low toxicity.[7] Successful results have been reported against nematodes such as Heligmosomoides bakeri, Trichinella spiralis, Nippostrongylus brasiliensis, Trichuris muris, and Ancylostoma ceylanicum; the tapeworm Rodentolepis microstoma, and the porcine acanthocephalan parasite Macracanthorynchus hirundinaceus.[8] A useful property of cysteine proteases is the resistance to acid digestion, allowing possible oral administration. They provide an alternative mechanism of action to current anthelmintics and the development of resistance is thought to be unlikely because it would require a complete change of structure of the helminth cuticle.
In several traditional medicines, the fruits or latex of the papaya, pineapple and fig are widely used for treatment of intestinal worm infections both in humans and livestock.
Other
Cysteine proteases are used as feed additives for livestock to improve the digestibility of proteins and nucleic acids.[9]
See also
- Protease
- serine-
- threonine-
- aspartic-
- metallo-
- Enzyme
- Proteolysis
- Catalytic triad
- Convergent evolution
- PA clan
- The Proteolysis Map
- Protease inhibitor (pharmacology)
- Protease inhibitor (biology)
- TopFIND - database of protease specificity, substrates, products and inhibitors
- MEROPS - Database of protease evolutionary groups
References
- ^ Domsalla A, Melzig MF (June 2008). "Occurrence and properties of proteases in plant latices". Planta Med. 74 (7): 699–711. doi:10.1055/s-2008-1074530. PMID 18496785.
- ^ Mitchel, R. E.; Chaiken, I. M.; Smith, E. L. (1970). "The complete amino acid sequence of papain. Additions and corrections". The Journal of Biological Chemistry. 245 (14): 3485–92. PMID 5470818.
- ^ Sierocka, I; Kozlowski, L. P.; Bujnicki, J. M.; Jarmolowski, A; Szweykowska-Kulinska, Z (2014). "Female-specific gene expression in dioecious liverwort Pellia endiviifolia is developmentally regulated and connected to archegonia production". BMC Plant Biology. 14: 168. doi:10.1186/1471-2229-14-168. PMC 4074843 . PMID 24939387.
- ^ Sorimachi, H; Ohmi, S; Emori, Y; Kawasaki, H; Saido, T. C.; Ohno, S; Minami, Y; Suzuki, K (1990). "A novel member of the calcium-dependent cysteine protease family". Biological Chemistry Hoppe-Seyler. 371 Suppl: 171–6. PMID 2400579.
- ^ Grudkowska M, Zagdańska B (2004). "Multifunctional role of plant cysteine proteinases" (PDF). Acta Biochim. Pol. 51 (3): 609–24. PMID 15448724.
- ^ Chapman HA, Riese RJ, Shi GP (1997). "Emerging roles for cysteine proteases in human biology". Annu. Rev. Physiol. 59: 63–88. doi:10.1146/annurev.physiol.59.1.63. PMID 9074757.
- ^ Stepek G, Behnke JM, Buttle DJ, Duce IR (July 2004). "Natural plant cysteine proteinases as anthelmintics?". Trends Parasitol. 20 (7): 322–7. doi:10.1016/j.pt.2004.05.003. PMID 15193563.
- ^ Behnke JM, Buttle DJ, Stepek G, Lowe A, Duce IR (2008). "Developing novel anthelmintics from plant cysteine proteinases". Parasit Vectors. 1 (1): 29. doi:10.1186/1756-3305-1-29. PMC 2559997 . PMID 18761736.
- ^ O'Keefe, Terrence (6 April 2012). "Protease enzymes improve amino acid digestibility". Wattagnet. Retrieved 6 January 2018.
External links
- The MEROPS online database for peptidases and their inhibitors: Cysteine Peptidases
- Cysteine endopeptidases at the US National Library of Medicine Medical Subject Headings (MeSH)
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Hydrolase: proteases (EC 3.4)
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| 3.4.11-19: Exopeptidase |
| 3.4.11 |
- Aminopeptidase
- Alanine
- Arginyl
- Aspartyl
- Cystinyl
- Leucyl
- Glutamyl
- Methionyl
- O
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| 3.4.13 |
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| 3.4.14 |
- Dipeptidyl peptidase
- Cathepsin C
- Dipeptidyl peptidase-4
- Tripeptidyl peptidase
- Tripeptidyl peptidase I
- Tripeptidyl peptidase II
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| 3.4.15 |
- Angiotensin-converting enzyme
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| 3.4.16 |
- Serine type carboxypeptidases: Cathepsin A
- DD-transpeptidase
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| 3.4.17 |
- Metalloexopeptidases
- Carboxypeptidase
- A
- A2
- B
- C
- E
- Glutamate II
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| Other/ungrouped |
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| 3.4.21-25: Endopeptidase |
- Serine protease
- Cysteine protease
- Aspartic acid protease
- Metalloendopeptidase
- Threonine endopeptidase
- Proteasome endopeptidase complex
- HslU—HslV peptidase
- Other/ungrouped: Amyloid precursor protein secretase
- Alpha secretase
- Beta-secretase 1
- Beta-secretase 2
- Gamma secretase
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| 3.4.99: Unknown |
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Proteases: cysteine proteases (EC 3.4.22)
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| Caspase |
- Caspase 1
- Caspase 2
- Caspase 3
- Caspase 4
- Caspase 5
- Caspase 6
- Caspase 7
- Caspase 8
- Caspase 9
- Caspase 10
- Caspase 12
- Caspase 13
- Caspase 14
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| Fruit-derived |
- Papain
- Ficain
- Bromelain
- Actinidain
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| Calpain |
- CAPN1
- CAPN2
- CAPN3
- CAPN5
- CAPN6
- CAPN7
- CAPN8
- CAPN9
- CAPN10
- CAPN11
- CAPN12
- CAPN13
- CAPN14
- CAPNS1
- CAPNS2
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| Cathepsin |
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| Other |
- Clostripain
- Cancer procoagulant
- Separase
- Autophagin
- Cruzipain
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Enzymes
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| Activity |
- Active site
- Binding site
- Catalytic triad
- Oxyanion hole
- Enzyme promiscuity
- Catalytically perfect enzyme
- Coenzyme
- Cofactor
- Enzyme catalysis
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| Regulation |
- Allosteric regulation
- Cooperativity
- Enzyme inhibitor
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| Classification |
- EC number
- Enzyme superfamily
- Enzyme family
- List of enzymes
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| Kinetics |
- Enzyme kinetics
- Eadie–Hofstee diagram
- Hanes–Woolf plot
- Lineweaver–Burk plot
- Michaelis–Menten kinetics
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| Types |
- EC1 Oxidoreductases (list)
- EC2 Transferases (list)
- EC3 Hydrolases (list)
- EC4 Lyases (list)
- EC5 Isomerases (list)
- EC6 Ligases (list)
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