Ricin

This page, as it appeared on May 14, 2013, was featured in this article in the journal Biochemistry and Molecular Biology Education.

Ricin is a potent cytotoxin that is synthesized in the endosperm cells of maturing seeds of the castor oil plant (Ricinus communis). Ricin belongs to a small multi-gene family that is composed of eight members. Ricin is classified as a type II heterodimeric Ribosome Inactivating Protein or RIPs. For toxins in Proteopedia see Toxins.

spinqualitylabelsall models Glycosylated ricin chain A (grey) and chain B (green) bound to dinucleotide APG (stick model) (PDB entry 3rtj) Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structure Ricin is a heterodimer that consists of a 32 kilodalton A chain glycoprotein (light blue) linked by a disulfide bond to a 32 kilodalton B chain glycoprotein (green). The A chain is an alpha/beta protein which contains eight alpha helices (pink) and eight beta sheets (yellow). It has three domains. Domain 1 consists of a beta sheet containing both parallel and anti-parallel strands. The second alpha helical domain makes up the core of the protein, and includes the active site. The third domain interacts with the B chain, and contains a helix and two beta strands. The A chain contains the active site that is responsible for inactivating the Ribosome via depurination. RIPs have very diverse structures, containing only eight invariant residues. These conserved residues are clustered in the active site. The B chain is a lectin that binds to galactose-containing surface receptors. Originally it was thought that the mode of action of Ricin poisoning was due to hemagglutination due to a closely related, co-isolating lectin, RCA. Mechanism of action The mechanism deployed by Ricin to gain entry to a host cell involves the poison's heterogenic properties. First, the B subunit binds to two carbohydrates on the cell surface, either glycolipids or glycoproteins, which both terminate with galactose. The interaction is facilitated by hydrogen bonds to lysine 40 and asparagine 46 in one domain and asparagine 255 in the other domain. Once bound, the ricin-glycoprotein complex is taken into the cells via endocytosis. This association between the A and B chain is essential for toxicity without it the Ricin would not be able to gain access to the cell, rendering it useless. The endocytotic pathway results in the cleavage of the disulfide bond linking the A and B chains. After cleavage, the A chain is released into the cytosol. Once the A chain gains into the cytosol, it depurinates a single adenosine residue in a highly conserved portion within the large ribosomal subunit of eukaryotes; in human, the large cytoplasmic ribosomal RNA is called the 28S ribosomal RNA because of its sedimentation properties during ultracentrifugation. The nucleotide depurinated is located within a specific, conserved loop referred to as the 'sarcin-ricin loop'. Depurination of the single adenosine nucleotide by the toxin results in the inhibition of protein synthesis. The proposed mechanism of depurination utilizes the conserved residues in the A chain. The aromatic ring structures of the substrate adenosine stack with the aromatic side chains of two tyrosine residues, Tyr 80 and 123, above and below. Hydrogen bonds form between the conserved arginine and a backbone carbonyl. The depurination reaction is aided by the protonation of N3 by Arg 180 and by ion pairing to Glu 177. A water molecule on the opposite side of the ribose is activated by hydrogen bonding to Arg 180. The activated water attacks C1' of the ribose, releasing the adenine and depurinated RNA fragment. This interferes with elongation factor binding to the ribosome, thus inhibiting translation. Site of ricin modification of rRNA Ricin removes an adenine from a specific portion of the 28S rRNA called the sacrin-ricin loop, or SRL. This depurination leads to reduced binding of elongation factors to the ribosome and reduced synthesis of proteins. It appears that binding of ricin chain A to the ribosome is mediated by binding to the ribosomal proteins and the ribosomal stalk, as binding to the naked rRNA occurs with lower affinity.. Ricin also triggers apoptosis , though the exact pathway is a current research topic. There is some evidence that it occurs via the B subunit , though there is also evidence that the protein synthesis inhibition may cause apoptosis .

3D structures of ricin (Updated on 09-September-2016)

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• Ricin A chain (RTA)
  • Ribosome, large ribosomal subunit, translation, elongation factors – RTA
    
  • 3lc9, 3mk9, 2vc4, 1uq4, 1uq5, 1obs, 3bjg, 3srp, 4imv – RTA (mutant)
• Ricin A chain binary complexes
  • 3px8 – RTA preproricin + 7-carboxy-pterin
    
  • 1br5, 1br6, 4esi, 4huo, 4hup, 4hv3, 4hv7, 4mx1, 4mx5 - RTA + pterin derivative
    
  • 3px9 - RTA preproricin + furanylmethyl-carbamoyl-pterin
    
  • 3lc9, 3mk9, 2vc4, 1uq4, 1uq5, 1obs – RTA (mutant)
    
  • 3hio – RTA + tetranucleotide
    
  • 3ej5, 1il5 – RTA pyrimidine derivative
    
  • 2p8n, 1ifs – RTA + adenine
    
  • 2pjo, 2r2x – RTA + urea derivative
    
  • 2r3d – RTA + acetamide
    
  • 2vc3 - RTA (mutant) + acetate
    
  • 1il3, 1il4, 1il9 – RTA + guanine derivative
    
  • 1ifu, 1fmp – RTA + formycin
    
  • 4q2v – RTA + baicalin
    
  • 1obt - RTA (mutant) + AMP
    
  • 1apg – RTA + RNA
  • 3px8 – RTA + formycin monophosphate
    
  • 4kuc, 4lgp, 4lgr, 4lgs, 4lhj, 4lhq – RTA + antibody
    
• Ricin B chain (RTB)
  • 3nbc, 3nbd – CnRTB + lactose – Clitocybe nebularis
    
  • 3nbe – CnRTB + lactose derivative
    
  • 3phz – RTB + glycoside – Polyporus squamosus
    
  • 3vsf – CtRTB lectin domain – Clostridium thermocellum
    
  • 3vsz – CtRTB lectin domain + galactan
    
  • 3vt0 – CtRTB lectin domain + lactose
    
  • 3vt1, 3vt2 – CtRTB lectin domain + galactose derivative
    
• Ricin A+B chains
  • 2aai - RTA + RTB
    
  • 3px8, 3rti – RTA + RTB + formycin monophosphate
    
  • 3rtj - RTA + RTB + dinucleotide

See Also

• Ribosome
• Large Ribosomal Subunit
• Translation

Proteopedia Page Contributors and Editors (what is this?)

Ann Taylor, Douglas Read, Wayne Decatur, Andrea Gorrell, Michal Harel, Joel L. Sussman, Angel Herraez, Alexander Berchansky, Jaime Prilusky, David Canner