Drosha

Drosha is a Class 2 ribonuclease III enzyme [5] that in humans is encoded by the DROSHA (formerly RNASEN) gene.[6][7][8]

DROSHA
Available structures PDB Ortholog search: PDBe RCSB List of PDB id codes 2KHX, 5B16
Identifiers
Aliases	DROSHA, ETOHI2, HSA242976, RANSE3L, RN3, RNASE3L, RNASEN, drosha ribonuclease III
External IDs	OMIM: 608828 MGI: 1261425 HomoloGene: 8293 GeneCards: DROSHA
Gene location (Human) Chr. Chromosome 5 (human)[1] Band 5p13.3 Start 31,400,497 bp[1] End 31,532,196 bp[1]
Gene location (Mouse) Chr. Chromosome 15 (mouse)[2] Band 15|15 A1 Start 12,824,815 bp[2] End 12,935,291 bp[2]
RNA expression pattern More reference expression data
Gene ontology Molecular function • ribonuclease III activity • protein homodimerization activity • lipopolysaccharide binding • metal ion binding • endoribonuclease activity • GO:0001948 protein binding • nuclease activity • endonuclease activity • hydrolase activity • RNA binding • DEAD/H-box RNA helicase binding • SMAD binding • R-SMAD binding • primary miRNA binding • double-stranded RNA binding Cellular component • nucleoplasm • microprocessor complex • nucleolus • cell nucleus • cell membrane • focal adhesion • GO:0097483, GO:0097481 postsynaptic density Biological process • RNA processing • ribosome biogenesis • nucleic acid phosphodiester bond hydrolysis • rRNA catabolic process • positive regulation of gene expression • defense response to Gram-negative bacterium • regulation of miRNA metabolic process • primary miRNA processing • regulation of gene expression • defense response to Gram-positive bacterium • RNA phosphodiester bond hydrolysis, endonucleolytic • regulation of regulatory T cell differentiation • RNA phosphodiester bond hydrolysis • regulation of inflammatory response • miRNA metabolic process • gene silencing by RNA • production of siRNA involved in RNA interference • pre-miRNA processing Sources:Amigo / QuickGO
Orthologs
Species	Human	Mouse
Entrez	29102	14000
Ensembl	ENSG00000113360	ENSMUSG00000022191
UniProt	Q9NRR4	Q5HZJ0
RefSeq (mRNA)	NM_001100412 NM_013235 NM_001382508	NM_001130149 NM_026799
RefSeq (protein)	NP_001093882 NP_037367 NP_001369437	NP_001123621 NP_081075
Location (UCSC)	Chr 5: 31.4 – 31.53 Mb	Chr 15: 12.82 – 12.94 Mb
PubMed search	[3]	[4]
Wikidata
View/Edit Human View/Edit Mouse

Function

Members of the ribonuclease III superfamily of double-stranded (ds) RNA-specific endoribonucleases participate in diverse RNA maturation and decay pathways in eukaryotic and prokaryotic cells.[9] The RNase III Drosha is the core nuclease that executes the initiation step of microRNA (miRNA) processing in the nucleus.[8][10]

The microRNAs thus generated are short RNA molecules that regulate a wide variety of other genes by interacting with the RNA-induced silencing complex (RISC) to induce cleavage of complementary messenger RNA (mRNA) as part of the RNA interference pathway. A microRNA molecule is synthesized as a long RNA primary transcript known as a pri-miRNA, which is cleaved by Drosha to produce a characteristic stem-loop structure of about 70 base pairs long, known as a pre-miRNA.[10] Drosha exists as part of a protein complex called the Microprocessor complex, which also contains the double-stranded RNA binding protein DGCR8 (called Pasha in D. melanogaster and C. elegans).[11] DGCR8 is essential for Drosha activity and is capable of binding single-stranded fragments of the pri-miRNA that are required for proper processing.[12]

Human Drosha was cloned in 2000 , when it was identified as a nuclear dsRNA ribonuclease involved in the processing of ribosomal RNA precursors. The other two human enzymes that participate in the processing and activity of miRNA are the Dicer and Argonaute proteins.

Both Drosha and DGCR8 are localized to the cell nucleus, where processing of pri-miRNA to pre-miRNA occurs. This latter molecule is then further processed by the RNase Dicer into mature miRNAs in the cell cytoplasm.[10] There also exists an isoform of Drosha that does not contain a nuclear localization signal, which results in the generation of c-Drosha.[13][14] This variant has been shown to localize to the cell cytoplasm rather than the nucleus, but the effects on pri-miRNA processing are yet unclear.

Both Drosha and Dicer also participate in the DNA damage response.[15]

Clinical significance

Drosha and other miRNA processing enzymes may be important in cancer prognosis.[16] Both Drosha and Dicer can function as master regulators of miRNA processing and have been observed to be down-regulated in some types of breast cancer.[17] The alternative splicing patterns of Drosha in The Cancer Genome Atlas have also indicated that c-drosha appears to be enriched in various types of breast cancer, colon cancer, and esophagus cancer.[14] However, the exact nature of the association between microRNA processing and tumorigenesis is unclear,[18] but its function can be effectively examined by siRNA knockdown based on an independent validation.[19]

References

1. GRCh38: Ensembl release 89: ENSG00000113360 - Ensembl, May 2017
2. GRCm38: Ensembl release 89: ENSMUSG00000022191 - Ensembl, May 2017
3. "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
4. "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
5. Filippov V, Solovyev V, Filippova M, Gill SS (March 2000). "A novel type of RNase III family proteins in eukaryotes". Gene. 245 (1): 213–21. doi:10.1016/s0378-1119(99)00571-5. PMID 10713462.
6. Filippov V, Solovyev V, Filippova M, Gill SS (March 2000). "A novel type of RNase III family proteins in eukaryotes". Gene. 245 (1): 213–21. doi:10.1016/S0378-1119(99)00571-5. PMID 10713462.
7. Wu H, Xu H, Miraglia LJ, Crooke ST (November 2000). "Human RNase III is a 160-kDa protein involved in preribosomal RNA processing". The Journal of Biological Chemistry. 275 (47): 36957–65. doi:10.1074/jbc.M005494200. PMID 10948199.
8. "Entrez Gene: RNASEN ribonuclease III, nuclear".
9. Fortin KR, Nicholson RH, Nicholson AW (August 2002). "Mouse ribonuclease III. cDNA structure, expression analysis, and chromosomal location". BMC Genomics. 3 (1): 26. doi:10.1186/1471-2164-3-26. PMC 122089. PMID 12191433.
10. Lee Y, Ahn C, Han J, Choi H, Kim J, Yim J, Lee J, Provost P, Rådmark O, Kim S, Kim VN (September 2003). "The nuclear RNase III Drosha initiates microRNA processing". Nature. 425 (6956): 415–9. doi:10.1038/nature01957. PMID 14508493. S2CID 4421030.
11. Denli AM, Tops BB, Plasterk RH, Ketting RF, Hannon GJ (November 2004). "Processing of primary microRNAs by the Microprocessor complex". Nature. 432 (7014): 231–5. doi:10.1038/nature03049. PMID 15531879. S2CID 4425505.
12. Han J, Lee Y, Yeom KH, Nam JW, Heo I, Rhee JK, Sohn SY, Cho Y, Zhang BT, Kim VN (June 2006). "Molecular basis for the recognition of primary microRNAs by the Drosha-DGCR8 complex". Cell. 125 (5): 887–901. doi:10.1016/j.cell.2006.03.043. PMID 16751099. S2CID 453021.
13. Link S, Grund SE, Diederichs S (May 2016). "Alternative splicing affects the subcellular localization of Drosha". Nucleic Acids Research. 44 (11): 5330–43. doi:10.1093/nar/gkw400. PMC 4914122. PMID 27185895.
14. Dai L, Chen K, Youngren B, Kulina J, Yang A, Guo Z, Li J, Yu P, Gu S (July 2016). "Cytoplasmic Drosha activity generated by alternative splicing". Nucleic Acids Research. 44 (21): 10454–10466. doi:10.1093/nar/gkw668. PMC 5137420. PMID 27471035.
15. Francia S, Michelini F, Saxena A, Tang D, de Hoon M, Anelli V, Mione M, Carninci P, d'Adda di Fagagna F (August 2012). "Site-specific DICER and DROSHA RNA products control the DNA-damage response". Nature. 488 (7410): 231–5. doi:10.1038/nature11179. PMC 3442236. PMID 22722852.
16. Slack FJ, Weidhaas JB (December 2008). "MicroRNA in cancer prognosis". The New England Journal of Medicine. 359 (25): 2720–2. doi:10.1056/NEJMe0808667. PMID 19092157.
17. Thomson JM, Newman M, Parker JS, Morin-Kensicki EM, Wright T, Hammond SM (August 2006). "Extensive post-transcriptional regulation of microRNAs and its implications for cancer". Genes & Development. 20 (16): 2202–7. doi:10.1101/gad.1444406. PMC 1553203. PMID 16882971.
18. Iorio MV, Croce CM (June 2012). "microRNA involvement in human cancer". Carcinogenesis. 33 (6): 1126–33. doi:10.1093/carcin/bgs140. PMC 3514864. PMID 22491715.
19. Munkácsy, Gyöngyi; Sztupinszki, Zsófia; Herman, Péter; Bán, Bence; Pénzváltó, Zsófia; Szarvas, Nóra; Győrffy, Balázs (2016-01-01). "Validation of RNAi Silencing Efficiency Using Gene Array Data shows 18.5% Failure Rate across 429 Independent Experiments". Molecular Therapy - Nucleic Acids. 5 (9): e366. doi:10.1038/mtna.2016.66. ISSN 2162-2531. PMC 5056990. PMID 27673562.

Further reading

• Gunther M, Laithier M, Brison O (July 2000). "A set of proteins interacting with transcription factor Sp1 identified in a two-hybrid screening". Molecular and Cellular Biochemistry. 210 (1–2): 131–42. doi:10.1023/A:1007177623283. PMID 10976766. S2CID 1339642.
• Fortin KR, Nicholson RH, Nicholson AW (August 2002). "Mouse ribonuclease III. cDNA structure, expression analysis, and chromosomal location". BMC Genomics. 3 (1): 26. doi:10.1186/1471-2164-3-26. PMC 122089. PMID 12191433.
• Lee Y, Ahn C, Han J, Choi H, Kim J, Yim J, Lee J, Provost P, Rådmark O, Kim S, Kim VN (September 2003). "The nuclear RNase III Drosha initiates microRNA processing". Nature. 425 (6956): 415–9. doi:10.1038/nature01957. PMID 14508493. S2CID 4421030.
• Gregory RI, Yan KP, Amuthan G, Chendrimada T, Doratotaj B, Cooch N, Shiekhattar R (November 2004). "The Microprocessor complex mediates the genesis of microRNAs". Nature. 432 (7014): 235–40. doi:10.1038/nature03120. PMID 15531877. S2CID 4389261.
• Zeng Y, Yi R, Cullen BR (January 2005). "Recognition and cleavage of primary microRNA precursors by the nuclear processing enzyme Drosha". The EMBO Journal. 24 (1): 138–48. doi:10.1038/sj.emboj.7600491. PMC 544904. PMID 15565168.
• Han J, Lee Y, Yeom KH, Kim YK, Jin H, Kim VN (December 2004). "The Drosha-DGCR8 complex in primary microRNA processing". Genes & Development. 18 (24): 3016–27. doi:10.1101/gad.1262504. PMC 535913. PMID 15574589.
• Landthaler M, Yalcin A, Tuschl T (December 2004). "The human DiGeorge syndrome critical region gene 8 and Its D. melanogaster homolog are required for miRNA biogenesis". Current Biology. 14 (23): 2162–7. doi:10.1016/j.cub.2004.11.001. hdl:11858/00-001M-0000-0012-EB83-3. PMID 15589161. S2CID 13266269.
• Zeng Y, Cullen BR (July 2005). "Efficient processing of primary microRNA hairpins by Drosha requires flanking nonstructured RNA sequences". The Journal of Biological Chemistry. 280 (30): 27595–603. doi:10.1074/jbc.M504714200. PMID 15932881.
• Irvin-Wilson CV, Chaudhuri G (2006). "Alternative initiation and splicing in dicer gene expression in human breast cells". Breast Cancer Research. 7 (4): R563–9. doi:10.1186/bcr1043. PMC 1175071. PMID 15987463.
• Kimura K, Wakamatsu A, Suzuki Y, Ota T, Nishikawa T, Yamashita R, Yamamoto J, Sekine M, Tsuritani K, Wakaguri H, Ishii S, Sugiyama T, Saito K, Isono Y, Irie R, Kushida N, Yoneyama T, Otsuka R, Kanda K, Yokoi T, Kondo H, Wagatsuma M, Murakawa K, Ishida S, Ishibashi T, Takahashi-Fujii A, Tanase T, Nagai K, Kikuchi H, Nakai K, Isogai T, Sugano S (January 2006). "Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes". Genome Research. 16 (1): 55–65. doi:10.1101/gr.4039406. PMC 1356129. PMID 16344560.
• Olsen JV, Blagoev B, Gnad F, Macek B, Kumar C, Mortensen P, Mann M (November 2006). "Global, in vivo, and site-specific phosphorylation dynamics in signaling networks". Cell. 127 (3): 635–48. doi:10.1016/j.cell.2006.09.026. PMID 17081983. S2CID 7827573.
• Sugito N, Ishiguro H, Kuwabara Y, Kimura M, Mitsui A, Kurehara H, Ando T, Mori R, Takashima N, Ogawa R, Fujii Y (December 2006). "RNASEN regulates cell proliferation and affects survival in esophageal cancer patients". Clinical Cancer Research. 12 (24): 7322–8. doi:10.1158/1078-0432.CCR-06-0515. PMID 17121874.
• Kim YK, Kim VN (February 2007). "Processing of intronic microRNAs". The EMBO Journal. 26 (3): 775–83. doi:10.1038/sj.emboj.7601512. PMC 1794378. PMID 17255951.
• Xing L, Kieff E (September 2007). "Epstein-Barr virus BHRF1 micro- and stable RNAs during latency III and after induction of replication". Journal of Virology. 81 (18): 9967–75. doi:10.1128/JVI.02244-06. PMC 2045418. PMID 17626073.

External links

• Overview of all the structural information available in the PDB for UniProt: Q9NRR4 (Ribonuclease 3) at the PDBe-KB.