Ribosome-inactivating protein

Last updated
Ribosome-inactivating protein
PDB 1paf EBI.jpg
Structure of pokeweed antiviral protein. [1]
Identifiers
SymbolRIP
Pfam PF00161
InterPro IPR001574
PROSITE PDOC00248
SCOP2 1paf / SCOPe / SUPFAM
Available protein structures:
Pfam   structures / ECOD  
PDB RCSB PDB; PDBe; PDBj
PDBsum structure summary
PDB PDB: 1abr PDB: 1aha PDB: 1ahb PDB: 1ahc PDB: 1apa PDB: 1apg PDB: 1br5 PDB: 1br6 PDB: 1bry PDB: 1cf5

A ribosome-inactivating protein (RIP) is a protein synthesis inhibitor that acts at the eukaryotic ribosome. [2] This protein family describes a large family of such proteins that work by acting as rRNA N-glycosylase (EC 3.2.2.22). They inactivate 60S ribosomal subunits by an N-glycosidic cleavage, which releases a specific adenine base from the sugar-phosphate backbone of 28S rRNA. [3] [4] [5] RIPs exist in bacteria and plants. [6]

Contents

Members of the family include shiga toxins, and type I (e.g. trichosanthin and luffin) and type II (e.g. ricin, agglutinin, and abrin) ribosome inactivating proteins (RIPs). All these toxins are structurally related. RIPs have been of considerable interest because of their potential use, conjugated with monoclonal antibodies, as immunotoxins to treat cancers. Further, trichosanthin has been shown to have potent activity against HIV-1-infected T cells and macrophages. [7] Elucidation of the structure-function relationships of RIPs has therefore become a major research effort. It is now known that RIPs are structurally related. A conserved glutamic residue has been implicated in the catalytic mechanism; [8] this lies near a conserved arginine residue, which also plays a role in catalysis. [9]

Only a minority of RIPs are toxic to humans when consumed, and proteins of this family are found in the vast majority of plants used for human consumption, such as Rice, Maize, and Barley. In plants, they are thought to defend against pathogens and insects. [10]

Classification

Ribosome-inactivating proteins (RIPs) are separated into the following types based on protein domain composition: [11]

Examples

Examples include:

Related Research Articles

<span class="mw-page-title-main">Ricin</span> Type of toxic lectin

Ricin ( RY-sin) is a lectin (a carbohydrate-binding protein) and a highly potent toxin produced in the seeds of the castor oil plant, Ricinus communis. The median lethal dose (LD50) of ricin for mice is around 22 micrograms per kilogram of body weight via intraperitoneal injection. Oral exposure to ricin is far less toxic. An estimated lethal oral dose in humans is approximately one milligram per kilogram of body weight.

<span class="mw-page-title-main">Shiga toxin</span> Family of related toxins

Shiga toxins are a family of related toxins with two major groups, Stx1 and Stx2, expressed by genes considered to be part of the genome of lambdoid prophages. The toxins are named after Kiyoshi Shiga, who first described the bacterial origin of dysentery caused by Shigella dysenteriae. Shiga-like toxin (SLT) is a historical term for similar or identical toxins produced by Escherichia coli. The most common sources for Shiga toxin are the bacteria S. dysenteriae and some serotypes of Escherichia coli, which include serotypes O157:H7, and O104:H4.

<span class="mw-page-title-main">Lectin</span> Carbohydrate-binding protein

Lectins are carbohydrate-binding proteins that are highly specific for sugar groups that are part of other molecules, so cause agglutination of particular cells or precipitation of glycoconjugates and polysaccharides. Lectins have a role in recognition at the cellular and molecular level and play numerous roles in biological recognition phenomena involving cells, carbohydrates, and proteins. Lectins also mediate attachment and binding of bacteria, viruses, and fungi to their intended targets.

<span class="mw-page-title-main">Ribonuclease</span> Class of enzyme that catalyzes the degradation of RNA

Ribonuclease is a type of nuclease that catalyzes the degradation of RNA into smaller components. Ribonucleases can be divided into endoribonucleases and exoribonucleases, and comprise several sub-classes within the EC 2.7 and 3.1 classes of enzymes.

<span class="mw-page-title-main">Exotoxin</span> Toxin from bacteria that destroys or disrupts cells

An exotoxin is a toxin secreted by bacteria. An exotoxin can cause damage to the host by destroying cells or disrupting normal cellular metabolism. They are highly potent and can cause major damage to the host. Exotoxins may be secreted, or, similar to endotoxins, may be released during lysis of the cell. Gram negative pathogens may secrete outer membrane vesicles containing lipopolysaccharide endotoxin and some virulence proteins in the bounding membrane along with some other toxins as intra-vesicular contents, thus adding a previously unforeseen dimension to the well-known eukaryote process of membrane vesicle trafficking, which is quite active at the host–pathogen interface.

<span class="mw-page-title-main">Abrin</span> Chemical compound

Abrin is an extremely toxic toxalbumin found in the seeds of the rosary pea, Abrus precatorius. It has a median lethal dose of 0.7 micrograms per kilogram of body mass when given to mice intravenously. The median toxic dose for humans ranges from 10 to 1000 micrograms per kilogram when ingested and is 3.3 micrograms per kilogram when inhaled.

<span class="mw-page-title-main">Gelonin</span>

Gelonin is a type 1 ribosome-inactivating protein and toxin of approximately 30 kDa found in the seeds of the Himalayan plant Gelonium multiflorum. In cell-free systems gelonin exerts powerful N-glycosidase activity on the 28S rRNA unit of eukaryotic ribosomes by cleaving out adenine at the 4324 site. Gelonin lacks carbohydrate-binding domains so it is unable to cross the plasma membrane, making it highly effective only in cell free systems.

The AB5 toxins are six-component protein complexes secreted by certain pathogenic bacteria known to cause human diseases such as cholera, dysentery, and hemolytic–uremic syndrome. One component is known as the A subunit, and the remaining five components are B subunits. All of these toxins share a similar structure and mechanism for entering targeted host cells. The B subunit is responsible for binding to receptors to open up a pathway for the A subunit to enter the cell. The A subunit is then able to use its catalytic machinery to take over the host cell's regular functions.

Saporin is a protein that is useful in biological research applications, especially studies of behavior. Saporins are so-called ribosome inactivating proteins (RIPs), due to its N-glycosidase activity, from the seeds of Saponaria officinalis. It was first described by Fiorenzo Stirpe and his colleagues in 1983 in an article that illustrated the unusual stability of the protein.

Beetin is a ribosome-inactivating protein found in the leaves of sugar beets, Beta vulgaris L, specifically attacking plant ribosomes. Sugar beet, beetins, that have been isolated meet all the criteria to be classified as single chain ribosome inactivating proteins that are highly toxic to mammalian ribosomes but non-toxic to intact cultured mammalian cells. Beetin expression occurs when there is a viral infection of the plant. The different levels of glycosylation of the same polypeptide chain result in the two forms of beetin. Beetin exhibits these two primary forms with apparent Mr values of 27 000 (BE27) and 29 000 (BE29) along with possessing glycan chains. Beetins are a type-I (single-chain) proteins with N-glycoside activity. Since it has been discovered that beetin is mostly concentrated in the intercellular fluid, its presence in the remaining parts of the leaf may be below the limit of detection rather than being nonexistent. The expression of beetin is only found in mature plants, but is present in all developing stages.

<span class="mw-page-title-main">Toxalbumin</span> Toxic plant proteins

Toxalbumins are toxic plant proteins that disable ribosomes and thereby inhibit protein synthesis, producing severe cytotoxic effects in multiple organ systems. They are dimers held together by a disulfide bond and comprise a lectin part which binds to the cell membrane and enables the toxin part to gain access to the cell contents. Toxalbumins are similar in structure to AB toxins found in cholera, tetanus, diphtheria, botulinum and others; and their physiological and toxic properties are similar to those of viperine snake venom.

<span class="mw-page-title-main">Antiviral protein</span>

Antiviral proteins are proteins that are induced by human or animal cells to interfere with viral replication. These proteins are isolated to inhibit the virus from replicating in a host's cells and stop it from spreading to other cells. The Pokeweed antiviral protein and the Zinc-Finger antiviral protein are two major antiviral proteins that have undergone several tests for viruses, including HIV and influenza.

rRNA endonuclease is an enzyme that catalyses the hydrolysis of the phosphodiester linkage between guanosine and adenosine residues at one specific position in the 28S rRNA of rat ribosomes. This enzyme also acts on bacterial rRNA.

<span class="mw-page-title-main">RRNA N-glycosylase</span>

rRNA N-glycosylase is an enzyme with systematic name rRNA N-glycohydrolase. This enzyme catalyses the following chemical reaction

<span class="mw-page-title-main">LCTL</span> Protein-coding gene in the species Homo sapiens

Lactase-like is a protein that in humans is encoded by the LCTL gene. Lactase-like is a glycosidase enzyme.

Volkensin is a eukaryotic ribosome-inactivating protein found in the Adenia volkensii plant. It is a glycoprotein with two subunits A and B. A subunit is linked to B subunit with disulfide bridges and non-covalent bonds. B subunit is responsible for binding to the galactosyl-terminated receptors on the cell membrane that allows the entry the A subunit of the toxin into the cell, which performs the inhibitory function. Volkensin is a galactose specific lectin that can inhibit protein synthesis in whole cells and in cell-free lysates. This protein can be included into the category of risin like toxins and it resembles modeccin, the toxin of Adenia digitata. Although very similar in composition, volkensin contains more cysteine residues and more than twice as much sugar than modeccin, due to high content of galactose and mannose. In addition, volkensin is able to inhibit protein synthesis at concentrations 10 times lower than required for modeccin. From gene sequencing analysis, volkensin was found to be coded by 1569-bp ORF, that is 523 amino acid residues without introns. The internal linker sequence is 45 bp. The active site of the A subunit contains Ser203, a novel residue that is conserved in all ribosome inactivating proteins.

<i>Drosophila neotestacea</i> Species of fly

Drosophila neotestacea is a member of the testacea species group of Drosophila. Testacea species are specialist fruit flies that breed on the fruiting bodies of mushrooms. These flies will choose to breed on psychoactive mushrooms such as the Fly Agaric Amanita muscaria. Drosophila neotestacea can be found in temperate regions of North America, ranging from the north eastern United States to western Canada.

Spiroplasma poulsonii are bacteria of the genus Spiroplasma that are commonly endosymbionts of flies. These bacteria live in the hemolymph of the flies, where they can act as reproductive manipulators or defensive symbionts.

<span class="mw-page-title-main">Fungal ribotoxin</span> Group of extracellular ribonucleases secreted by fungi

Fungal ribotoxins are a group of extracellular ribonucleases (RNases) secreted by fungi. Their most notable characteristic is their extraordinary specificity. They inactivate ribosomes by cutting a single phosphodiester bond of the rRNA that is found in a universally conserved sequence. This cleavage leads to cell death by apoptosis. However, since they are extracellular proteins, they must first enter the cells that constitute their target to exert their cytotoxic action. This entry constitutes the rate-determining step of their action.

Modeccin is a toxic lectin, a group of glycoproteins capable of binding specifically to sugar moieties. Different toxic lectins are present in seeds of different origin. Modeccin is found in the roots of the African plant Adenia digitata. These roots are often mistaken for edible roots, which has led to some cases of intoxication. Sometimes the fruit is eaten, or a root extract is drunk as a manner of suicide.

References

  1. Monzingo AF, Collins EJ, Ernst SR, Irvin JD, Robertus JD (October 1993). "The 2.5 A structure of pokeweed antiviral protein". Journal of Molecular Biology. 233 (4): 705–15. doi:10.1006/jmbi.1993.1547. PMID   8411176.
  2. Ribosome+Inactivating+Proteins at the U.S. National Library of Medicine Medical Subject Headings (MeSH)
  3. Endo Y, Tsurugi K, Yutsudo T, Takeda Y, Ogasawara T, Igarashi K (January 1988). "Site of action of a Vero toxin (VT2) from Escherichia coli O157:H7 and of Shiga toxin on eukaryotic ribosomes. RNA N-glycosidase activity of the toxins". European Journal of Biochemistry. 171 (1–2): 45–50. doi: 10.1111/j.1432-1033.1988.tb13756.x . PMID   3276522.
  4. May MJ, Hartley MR, Roberts LM, Krieg PA, Osborn RW, Lord JM (January 1989). "Ribosome inactivation by ricin A chain: a sensitive method to assess the activity of wild-type and mutant polypeptides". The EMBO Journal. 8 (1): 301–8. doi:10.1002/j.1460-2075.1989.tb03377.x. PMC   400803 . PMID   2714255.
  5. Funatsu G, Islam MR, Minami Y, Sung-Sil K, Kimura M (1991). "Conserved amino acid residues in ribosome-inactivating proteins from plants". Biochimie. 73 (7–8): 1157–61. doi:10.1016/0300-9084(91)90160-3. PMID   1742358.
  6. Mak AN, Wong YT, An YJ, Cha SS, Sze KH, Au SW, et al. (2007). "Structure-function study of maize ribosome-inactivating protein: implications for the internal inactivation region and the sole glutamate in the active site". Nucleic Acids Research. 35 (18): 6259–67. doi:10.1093/nar/gkm687. PMC   2094058 . PMID   17855394.
  7. Zhou K, Fu Z, Chen M, Lin Y, Pan K (May 1994). "Structure of trichosanthin at 1.88 A resolution". Proteins. 19 (1): 4–13. doi:10.1002/prot.340190103. PMID   8066085. S2CID   21524411.
  8. Hovde CJ, Calderwood SB, Mekalanos JJ, Collier RJ (April 1988). "Evidence that glutamic acid 167 is an active-site residue of Shiga-like toxin I". Proceedings of the National Academy of Sciences of the United States of America. 85 (8): 2568–72. Bibcode:1988PNAS...85.2568H. doi: 10.1073/pnas.85.8.2568 . PMC   280038 . PMID   3357883.
  9. Monzingo AF, Collins EJ, Ernst SR, Irvin JD, Robertus JD (October 1993). "The 2.5 A structure of pokeweed antiviral protein". Journal of Molecular Biology. 233 (4): 705–15. doi:10.1006/jmbi.1993.1547. PMID   8411176.
  10. Zhu, Feng; Zhou, Yang-Kai; Ji, Zhao-Lin; Chen, Xiao-Ren (9 February 2018). "The Plant Ribosome-Inactivating Proteins Play Important Roles in Defense against Pathogens and Insect Pest Attacks". Frontiers in Plant Science. 9: 146. doi: 10.3389/fpls.2018.00146 . PMC   5811460 . PMID   29479367.
  11. 1 2 3 4 Lapadula WJ, Ayub MJ (September 2017). "Ribosome Inactivating Proteins from an evolutionary perspective". Toxicon. 136: 6–14. doi:10.1016/j.toxicon.2017.06.012. PMID   28651991. S2CID   9814488.
  12. Fredriksson, Sten-Åke; Artursson, Elisabet; Bergström, Tomas; Östin, Anders; Nilsson, Calle; Åstot, Crister (December 2014). "Identification of RIP-II Toxins by Affinity Enrichment, Enzymatic Digestion and LC-MS". Analytical Chemistry. 87 (2): 967–974. doi:10.1021/ac5032918. ISSN   0003-2700. PMID   25496503.
  13. Hamilton PT, Peng F, Boulanger MJ, Perlman SJ (January 2016). "A ribosome-inactivating protein in a Drosophila defensive symbiont". Proceedings of the National Academy of Sciences of the United States of America. 113 (2): 350–5. Bibcode:2016PNAS..113..350H. doi: 10.1073/pnas.1518648113 . PMC   4720295 . PMID   26712000.
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This article incorporates text from the public domain Pfam and InterPro: IPR001574