Ribosome inactivating protein: Difference between revisions

Revision as of 11:52, 2 March 2022

Function

Ribosome inactivating protein (RIP) is a bacterial or plant toxin which inhibits protein synthesis. RIP inactivates the ribosomal 60S subunit by N-glycosidic cleavage which results in releasing a specific adenine from 28S rRNA^[1]. Type 1 RIP have a single chain, while type 2 RIP (i.e., ricin, ebulin and nigrin) have two chains. Momorcharin is a RIP isolated from several plants^[2].

Relevance

RIP is being investigated as an immunotoxin for cancer treatment. Besides the anti-tumor activity of RIP, it was shown to have antiviral, antifungal, insecticidal, ribonuclease and deoxyribonuclease activities. Enhanced expression of RIP in plants confers an increased resistance to virus, fungi, insects, drought and salinity. α-momorcharin has potent inhibitory effect on some cancer cells^[3].

Structural highlights

The ^[4]. Water molecules are shown as red spheres.

Ribosome inactivating protein from pokeweed complex with adenine (PDB code 1qci)

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3D Structures of ribosome inactivating protein3D Structures of ribosome inactivating protein

Ribosome inactivating protein 3D structures

Updated on 02-March-2022

Pokeweed ribosome inactivating protein
- 1apa, 1paf, 1pag, 1qcg – apRIP – american pokeweed
- 1j1q, 1gik – apRIP-S
- 1j1r – apRIP-S + adenine
- 1j1s – apRIP-S + formycin
- 1qci – apRIP + adenine
- 1d6a – apRIP + guanine
- 1qcj – apRIP + pteoric acid
- 1lln – apRIP-3 + methylated lysine
Phytolacca dioica ribosome inactivating protein
- 3h5k – PdRIP PD-L1 – Phytolacca dioica
- 3le7 – PdRIP PD-L1 + adenine
- 2z4u – PdRIP PD-L4
- 2z53 – PdRIP PD-L4 (mutant)
- 2qes – PdRIP PD-L4 + adenine
- 2qet – PdRIP PD-L4 (mutant) + adenine
Dianthin 30 ribosome inactivating protein
- 1lp8, 1rl0 – cpRIP – clove pink
- 1lpc – cpRIP + cAMP
- 1lpd – cpRIP + adenine
Type 1 ribosome inactivating protein
- 2g5x – RIP – scarlet lychnis
- 3ctk – RIP – bougainvillea
- 3mrw, 3s9q, 4kmk, 4kwn, 4l66, 1cf5, 5gm7, 4rzj – bgRIP – bitter gourd
- 1f8q, 1aha, 1ahb, 1ahc, 1mri – bpα-RIP – balsam pear
- 3mvg – RIP – dutch iris
- 6z1y – sgRIP trichosanthin – snake gourd
- 6yts – sgRIP trichosanthin - NMR
Type 1 ribosome inactivating protein complex with nucleotide
- 3mry – bgRIP + aminopurine
- 4kpv, 5y48 – bgRIP + pyrimidine derivative
- 3rl9, 3u6z, 3u70, 3v2k – bgRIP + adenine
- 4dwm, 4rzj – bgRIP + NAG
- 3n1n, 3my6 – baRIP + guanine – balsam apple
- 4f9n, 4i47 – bgRIP + guanine
- 5ilx, 4o0o – bgRIP + uracil derivative
- 5cso, 5cst – bgRIP + cytidine
- 4zt8 – bgRIP + cytosine
- 4zu0, 4zz6, 4z44, 4o4q, 4o8e, 4q9f, 1mrg, 3q4p, 3qji, 4emf, 4emr, 5cso, 5cst, 5ilw, 5ilx – bgα-RIP + nucleotide
Type 1 ribosome inactivating protein complex with peptide
- 4fxa, 4lt4, 4m5a – bgRIP + arginine derivative
- 3n3x – baRIP + polypeptide
- 3n2d – bgRIP + polypeptide
Type 1 ribosome inactivating protein other complexes
- 3n31, 3n5d, 3n31, 3nfm, 3njs, 3nx9, 3n1d – baRIP + sugar
- 3v14, 4fz9, 4guw, 4hoa, 5wv1 – bgRIP + sugar
- 4lro – bgRIP + spermidine
- 5y48 – bgRIP + pyrimidine derivative
- 3sj6 – bgRIP + oxalane derivative
- 3u6t – bgRIP + kanamycin
- 3u8f – bgRIP + mycolic acid
- 4h0z – bgRIP + acetyl-muramic acid
- 4jtp – bgRIP + ascorbic acid
- 4k2z – bgRIP + methylethylamine
- 5cix – bgRIP + triethanolamine
- 5gz7 – bgRIP + PEG
- 4k2z – bgRIP + ethanediol
- 4jtb – bgRIP + phosphate
- 4lwx – bgRIP + peptidoglycan
- 4yp2 – bgRIP + nicotinamide
- 1mrh – bpα-RIP + formycin
- 4fz9, 4xy7 – bgα-RIP + disaccharide
- 5cf9 – bgα-RIP + NADP
Type 2 ribosome inactivating protein
- 5y42 – sgRIP
- 2jjr, 2vs6 – sgRIP trichosanthin (mutant)
- 2mll – RIP – mistletoe
- 2vlc – RIP cinnamomin – camphor tree
Ribosome inactivating protein
- 2k6h – cRIP – corn - NMR
- 2pqg, 2pqi – cRIP3
- 2pqj – cRIP3 + adenine
- 2oqa – spgRIP – sponge gourd
- 2l37, 6o3s – spgRIP - NMR
- 3ktz – GmRIP gelonin – Gelonium multiforum
- 3ku0 – GmRIP gelonin + adenine
Momorcharin or momordin
- 1f8q, 1aha, 1ahb, 1ahc, 1mri – bpa-RIP – balsam pear
- 1mrg – bpa-RIP + adenosine
- 1mrh – bpa-RIP + formycin
- 1cf5 – bpb-RIP
- 6loq, 6lor, 6lov, 6low, 6loy, 6loz, 6lp0 – bg-RIP + nucleotide – bitter gourd

ReferencesReferences

↑ Stirpe F, Barbieri L. Ribosome-inactivating proteins up to date. FEBS Lett. 1986 Jan 20;195(1-2):1-8. PMID:3510899
↑ Wang S, Zheng Y, Yan J, Zhu Z, Wu Z, Ding Y. Alpha-momorcharin: a ribosome-inactivating protein from Momordica charantia, possessing DNA cleavage properties. Protein Pept Lett. 2013 Nov;20(11):1257-63. PMID:23777339
↑ Ng TB, Liu WK, Sze SF, Yeung HW. Action of alpha-momorcharin, a ribosome inactivating protein, on cultured tumor cell lines. Gen Pharmacol. 1994 Jan;25(1):75-7. PMID:8026716
↑ Kurinov IV, Myers DE, Irvin JD, Uckun FM. X-ray crystallographic analysis of the structural basis for the interactions of pokeweed antiviral protein with its active site inhibitor and ribosomal RNA substrate analogs. Protein Sci. 1999 Sep;8(9):1765-72. PMID:10493577

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky, Joel L. Sussman

[1] Stirpe F, Barbieri L. Ribosome-inactivating proteins up to date. FEBS Lett. 1986 Jan 20;195(1-2):1-8. PMID:3510899

[2] Wang S, Zheng Y, Yan J, Zhu Z, Wu Z, Ding Y. Alpha-momorcharin: a ribosome-inactivating protein from Momordica charantia, possessing DNA cleavage properties. Protein Pept Lett. 2013 Nov;20(11):1257-63. PMID:23777339

[3] Ng TB, Liu WK, Sze SF, Yeung HW. Action of alpha-momorcharin, a ribosome inactivating protein, on cultured tumor cell lines. Gen Pharmacol. 1994 Jan;25(1):75-7. PMID:8026716

[4] Kurinov IV, Myers DE, Irvin JD, Uckun FM. X-ray crystallographic analysis of the structural basis for the interactions of pokeweed antiviral protein with its active site inhibitor and ribosomal RNA substrate analogs. Protein Sci. 1999 Sep;8(9):1765-72. PMID:10493577

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@@ Line 11: / Line 11: @@
 == 3D Structures of ribosome inactivating protein ==
+[[Ribosome inactivating protein 3D structures]]
 Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
@@ Line 48: / Line 49: @@
 **[[1f8q]], [[1aha]], [[1ahb]], [[1ahc]], [[1mri]] – bpα-RIP – balsam pear <br />
 **[[3mvg]] – RIP – dutch iris <br />
+**[[6z1y]] – sgRIP trichosanthin – snake gourd <br />
+**[[6yts]] – sgRIP trichosanthin - NMR<br />
 *Type 1 ribosome inactivating protein complex with nucleotide
@@ Line 92: / Line 95: @@
 *Type 2 ribosome inactivating protein
-**[[5y42]] – angRIP – snake gourd<br />
+**[[5y42]] – sgRIP <br />
-**[[2jjr]], [[2vs6]] – sngRIP trichosanthin (mutant) <br />
+**[[2jjr]], [[2vs6]] – sgRIP trichosanthin (mutant) <br />
 **[[2mll]] – RIP – mistletoe<br />
 **[[2vlc]] – RIP cinnamomin – camphor tree<br />
@@ Line 102: / Line 105: @@
 **[[2pqg]], [[2pqi]] – cRIP3 <br />
 **[[2pqj]] – cRIP3 + adenine<br />
-**[[2oqa]] – sgRIP – sponge gourd <br />
+**[[2oqa]] – spgRIP – sponge gourd <br />
-**[[2l37]], [[6o3s]] – sgRIP - NMR<br />
+**[[2l37]], [[6o3s]] – spgRIP - NMR<br />
 **[[3ktz]] – GmRIP gelonin – ''Gelonium multiforum''<br />
 **[[3ku0]] – GmRIP gelonin + adenine<br />
+*Momorcharin or momordin
+**[[1f8q]], [[1aha]], [[1ahb]], [[1ahc]], [[1mri]] – bpa-RIP – balsam pear <br />
+**[[1mrg]] – bpa-RIP + adenosine <br />
+**[[1mrh]] – bpa-RIP + formycin<br />
+**[[1cf5]] – bpb-RIP  <br />
+**[[6loq]], [[6lor]],  [[6lov]], [[6low]], [[6loy]], [[6loz]], [[6lp0]] – bg-RIP + nucleotide – bitter gourd <br />
 }}