Structural features of Argonaute-GW182 protein interactions

Proceedings of the National Academy of Sciences of the United States of America

Volumn 110, Issue 40, 2013, Pages

  Pfaff, Janina ^a,b   Hennig, Janosch ^b,c   Herzog, Franz ^d,e   Aebersold, Ruedi ^d   Sattler, Michael ^b,c   Niessing, Dierk ^b   Meister, Gunter ^a  

^a UNIVERSITY OF REGENSBURG   (Germany)

^b INSTITUTE OF EPIDEMIOLOGY   (Germany)

^c Munich Center for Integrated Protein Science   (Germany)

^d ETH ZURICH   (Switzerland)

^e UNIVERSITY OF MUNICH   (Germany)

Author keywords

Gene regulation; RNA interference; RNAi; Small RNA mediated gene silencing

Indexed keywords

ARGONAUTE 2 PROTEIN; ARGONAUTE PROTEIN; AROMATIC AMINO ACID; HYDROXYL GROUP; MESSENGER RNA; MICRORNA; TRYPTOPHAN;

ARTICLE; BINDING SITE; CIRCULAR DICHROISM; CONTROLLED STUDY; CROSS LINKING; GENE CONTROL; GENE SILENCING; MASS SPECTROMETRY; NUCLEAR MAGNETIC RESONANCE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN DEGRADATION; PROTEIN FAMILY; PROTEIN INTERACTION; PROTEIN STRUCTURE;

GENE REGULATION; RNA INTERFERENCE; RNAI; SMALL RNA-MEDIATED GENE SILENCING;

ARGONAUTE PROTEINS; AUTOANTIGENS; BACULOVIRIDAE; CIRCULAR DICHROISM; FLUORESCENCE POLARIZATION; GENE EXPRESSION REGULATION; GENETIC VECTORS; HEK293 CELLS; HUMANS; IMMUNOPRECIPITATION; MAGNETIC RESONANCE SPECTROSCOPY; MASS SPECTROMETRY; MODELS, MOLECULAR; MULTIPROTEIN COMPLEXES; PROTEIN BINDING; PROTEIN CONFORMATION; RNA INTERFERENCE; RNA-BINDING PROTEINS;

EID: 84885060839     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1308510110     Document Type: Article

References (44)

1. Bartel DP (2009) MicroRNAs: Target recognition and regulatory functions. Cell 136(2): 215-233.
2. Kim VN, Han J, Siomi MC (2009) Biogenesis of small RNAs in animals. Nat Rev Mol Cell Biol 10(2):126-139.
3. Ender C, Meister G (2010) Argonaute proteins at a glance. J Cell Sci 123(Pt 11): 1819-1823.
4. Jinek M, Doudna JA (2009) A three-dimensional view of the molecular machinery of RNA interference. Nature 457(7228):405-412.
5. Liu J, et al. (2004) Argonaute2 is the catalytic engine of mammalian RNAi. Science 305 (5689):1437-1441.
6. Meister G, et al. (2004) Human Argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs. Mol Cell 15(2):185-197.
7. Rehwinkel J, Behm-Ansmant I, Gatfield D, Izaurralde E (2005) A crucial role for GW182 and the DCP1:DCP2 decapping complex in miRNA-mediated gene silencing. RNA 11(11): 1640-1647.
8. Meister G, et al. (2005) Identification of novel argonaute-associated proteins. Curr Biol 15(23):2149-2155.
9. Liu J, et al. (2005) A role for the P-body component GW182 in microRNA function. Nat Cell Biol 7(12):1261-1266.
10. Jakymiw A, et al. (2005) Disruption of GW bodies impairs mammalian RNA interference. Nat Cell Biol 7(12):1267-1274.
11. Ding L, Spencer A, Morita K, Han M (2005) The developmental timing regulator AIN-1 interacts with miRISCs and may target the argonaute protein ALG-1 to cytoplasmic P bodies in C. elegans. Mol Cell 19(4):437-447.
12. Huntzinger E, Izaurralde E (2011) Gene silencing by microRNAs: Contributions of translational repression and mRNA decay. Nat Rev Genet 12(2):99-110.
13. Till S, et al. (2007) A conserved motif in Argonaute-interacting proteins mediates functional interactions through the Argonaute PIWI domain. Nat Struct Mol Biol 14(10):897-903.
14. Lazzaretti D, Tournier I, Izaurralde E (2009) The C-terminal domains of human TNRC6A, TNRC6B, and TNRC6C silence bound transcripts independently of Argonaute proteins. RNA 15(6):1059-1066.
15. Lian SL, et al. (2009) The C-terminal half of human Ago2 binds to multiple GW-rich regions of GW182 and requires GW182 to mediate silencing. RNA 15(5):804-813.
16. Takimoto K, Wakiyama M, Yokoyama S (2009) Mammalian GW182 contains multiple Argonaute-binding sites and functions in microRNA-mediated translational repression. RNA 15(6):1078-1089.
17. Chekulaeva M, Filipowicz W, Parker R (2009) Multiple independent domains of dGW182 function in miRNA-mediated repression in Drosophila. RNA 15(5):794-803.
18. Zipprich JT, Bhattacharyya S,Mathys H, FilipowiczW(2009) Importance of the C-terminal domain of the human GW182 protein TNRC6C for translational repression. RNA 15(5): 781-793.
19. Baillat D, Shiekhattar R (2009) Functional dissection of the human TNRC6 (GW182-related) family of proteins. Mol Cell Biol 29(15):4144-4155.
20. Eulalio A, Helms S, Fritzsch C, Fauser M, Izaurralde E (2009) A C-terminal silencing domain in GW182 is essential for miRNA function. RNA 15(6):1067-1077.
21. Fabian MR, et al. (2009) Mammalian miRNA RISC recruits CAF1 and PABP to affect PABP-dependent deadenylation. Mol Cell 35(6):868-880.
22. Zekri L, Huntzinger E, Heimstädt S, Izaurralde E (2009) The silencing domain of GW182 interacts with PABPC1 to promote translational repression and degradation of microRNA targets and is required for target release. Mol Cell Biol 29(23): 6220-6231.
23. Huntzinger E, Braun JE, Heimstädt S, Zekri L, Izaurralde E (2010) Two PABPC1-binding sites in GW182 proteins promote miRNA-mediated gene silencing. EMBO J 29(24): 4146-4160.
24. Moretti F, Kaiser C, Zdanowicz-Specht A, HentzeMW (2012) PABP and the poly(A) tail augment microRNA repression by facilitated miRISC binding. Nat Struct Mol Biol 19(6):603-608.
25. Fabian MR, et al. (2011) miRNA-mediated deadenylation is orchestrated by GW182 through two conserved motifs that interact with CCR4-NOT. Nat Struct Mol Biol 18(11):1211-1217.
26. Braun JE, Huntzinger E, Fauser M, Izaurralde E (2011) GW182 proteins directly recruit cytoplasmic deadenylase complexes to miRNA targets. Mol Cell 44(1):120-133.
27. Fabian MR, Sonenberg N, Filipowicz W (2010) Regulation of mRNA translation and stability by microRNAs. Annu Rev Biochem 79:351-379.
28. Schirle NT, MacRae IJ (2012) The crystal structure of human Argonaute2. Science 336(6084):1037-1040.
29. Petri S, et al. (2011) Increased siRNA duplex stability correlates with reduced offtarget and elevated on-target effects. RNA 17(4):737-749.
30. Wang D, et al. (2012) Quantitative functions of Argonaute proteins in mammalian development. Genes Dev 26(7):693-704.
31. Diella F, et al. (2008) Understanding eukaryotic linear motifs and their role in cell signaling and regulation. Front Biosci 13:6580-6603.
32. Rüdel S, Flatley A, Weinmann L, Kremmer E, Meister G (2008) A multifunctional human Argonaute2-specific monoclonal antibody. RNA 14(6):1244-1253.
33. Delaglio F, et al. (1995) NMRPipe: A multidimensional spectral processing system based on UNIX pipes. J Biomol NMR 6(3):277-293.
34. Sattler M, Schwendinger MG, Schleucher J, Griesinger C (1995) Novel strategies for sensitivity enhancement in heteronuclear multi-dimensional NMR experiments employing pulsed field gradients. J Biomol NMR 6(1):11-22.
35. Schwarzinger S, et al. (2001) Sequence-dependent correction of random coil NMR chemical shifts. J Am Chem Soc 123(13):2970-2978.
36. Wishart DS, Bigam CG, Holm A, Hodges RS, Sykes BD (1995) 1H, 13C and 15N random coil NMR chemical shifts of the common amino acids. I. Investigations of nearestneighbor effects. J Biomol NMR 5(1):67-81.
37. Mayer M, Meyer B (2001) Group epitope mapping by saturation transfer difference NMR to identify segments of a ligand in direct contact with a protein receptor. J Am Chem Soc 123(25):6108-6117.
38. Farrow NA, et al. (1994) Backbone dynamics of a free and phosphopeptidecomplexed Src homology 2 domain studied by 15N NMR relaxation. Biochemistry 33(19):5984-6003.
39. Ahlner A, Carlsson M, Jonsson BH, Lundström P (2013) PINT: A software for integration of peak volumes and extraction of relaxation rates. J Biomol NMR 56(3): 191-202.
40. Mulder FA, Schipper D, Bott R, Boelens R (1999) Altered flexibility in the substratebinding site of related native and engineered high-alkaline Bacillus subtilisins. J Mol Biol 292(1):111-123.
41. Herzog F, et al. (2012) Structural probing of a protein phosphatase 2A network by chemical cross-linking and mass spectrometry. Science 337(6100):1348-1352.
42. Walzthoeni T, et al. (2012) False discovery rate estimation for cross-linked peptides identified by mass spectrometry. Nat Methods 9(9):901-903.
43. Katoh K, Kuma K, Toh H, Miyata T (2005) MAFFT version 5: Improvement in accuracy of multiple sequence alignment. Nucleic Acids Res 33(2):511-518.
44. Waterhouse AM, Procter JB, Martin DM, Clamp M, Barton GJ (2009) Jalview Version 2-a multiple sequence alignment editor and analysis workbench. Bioinformatics 25(9):1189-1191.