title: Endonuclease domain of the Drosophila melanogaster R2 non-LTR retrotransposon and related retroelements: a new model for transposition.
abstract: The molecular mechanisms of the transposition of non-long terminal repeat (non-LTR) retrotransposons are not well understood; the key questions of how the 3'-ends of cDNA copies integrate and how site-specific integration occurs remain unresolved. Integration depends on properties of the endonuclease (EN) domain of retrotransposons. Using the EN domain of the Drosophila R2 retrotransposon as a model for other, closely related non-LTR retrotransposons, we investigated the EN domain and found that it resembles archaeal Holliday-junction resolvases. We suggest that these non-LTR retrotransposons are co-transcribed with the host transcript. Combined with the proposed resolvase activity of the EN domain, this model yields a novel mechanism for site-specific retrotransposition within this class of retrotransposons, with resolution proceeding via a Holliday junction intermediate.
authors: Vavilov Institute of General Genetics, Russian Academy of Sciences Moscow, Russia.
authors: Dmitry V
authors: DV
authors: Mukha
authors: Elena G
authors: EG
authors: Pasyukova
authors: Tatiana V
authors: TV
authors: Kapelinskaya
authors: Arina S
authors: AS
authors: Kagramanova
keywords: Holliday junction-resolving enzymes; R-loops; endonucleases; non-LTR retrotransposons; target-specific retrotransposition
references: Mol Cell Biol. 2010 Jul;30(13):3142-50
references: 20421411
references: Structure. 2001 Mar 7;9(3):197-204
references: 11286886
references: Nucleic Acids Res. 2004 Mar 03;32(4):1555-65
references: 14999096
references: Mol Cell Biol. 2010 Jan;30(1):146-59
references: 19841062
references: Cell. 1999 Dec 10;99(6):615-23
references: 10612397
references: Science. 1997 Sep 19;277(5333):1824-7
references: 9295273
references: Mol Cell Biol. 2006 Dec;26(23):8781-90
references: 17000772
references: Mol Biol Evol. 2006 Oct;23(10):1984-93
references: 16870681
references: EMBO J. 1998 Mar 2;17(5):1526-34
references: 9482749
references: J Mol Biol. 2007 Nov 23;374(2):322-33
references: 17936300
references: Bioinformatics. 2005 Apr 1;21(7):951-60
references: 15531603
references: Nucleic Acids Res. 2012 Jan;40(Database issue):D302-5
references: 22053084
references: Mol Cell Biol. 2005 Aug;25(15):6617-28
references: 16024797
references: Nat Protoc. 2009;4(3):363-71
references: 19247286
references: Nucleic Acids Res. 2004 Oct 12;32(18):5442-51
references: 15479781
references: J Biol Chem. 2011 Dec 2;286(48):41286-41295
references: 21994949
references: Genome Biol. 2009;10(5):R49
references: 19416522
references: Methods Mol Biol. 2012;859:1-28
references: 22367863
references: Mol Cell Biol. 1995 Jul;15(7):3882-91
references: 7540721
references: BMC Genomics. 2005 Feb 18;6:21
references: 15720711
references: Protein Sci. 2003 May;12(5):1073-86
references: 12717029
references: Mol Cell Biol. 1990 Feb;10(2):615-24
references: 2153919
references: Cell. 1995 Aug 25;82(4):545-54
references: 7664334
references: Cell. 1993 Feb 26;72(4):595-605
references: 7679954
references: Mol Cell Biol. 2003 Jun;23(11):3825-36
references: 12748285
references: Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W244-8
references: 15980461
references: Nat Rev Mol Cell Biol. 2003 Jun;4(6):435-45
references: 12778123
references: Mob DNA. 2010 May 12;1(1):15
references: 20462415
references: Cytogenet Genome Res. 2005;110(1-4):510-21
references: 16093704
references: Mol Biol Evol. 1999 Apr;16(4):502-11
references: 10331276
references: Genomics Inform. 2012 Dec;10(4):226-33
references: 23346034
references: Nature. 2009 Apr 16;458(7240):914-8
references: 19194459
references: Mol Cell. 2006 May 5;22(3):351-61
references: 16678107
references: Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17602-7
references: 17105809
references: Nature. 1992 Mar 5;356(6364):83-5
references: 1538787
references: Mol Ecol. 2013 Mar;22(6):1503-17
references: 23293987
references: Nucleic Acids Res. 2005 Nov 10;33(20):6461-8
references: 16284201
references: Mol Cell. 2012 Apr 27;46(2):115-24
references: 22541554
references: Proc Natl Acad Sci U S A. 1998 Sep 1;95(18):10564-9
references: 9724743
references: Genet Res Int. 2012;2012:276948
references: 22567380
references: Biochem Soc Trans. 2010 Apr;38(2):399-403
references: 20298191
references: Cytogenet Genome Res. 2005;110(1-4):250-68
references: 16093679
references: Nature. 2009 Apr 16;458(7240):909-13
references: 19194458
references: Mol Biol Evol. 2005 Nov;22(11):2157-65
references: 16014872
references: FEBS J. 2009 Mar;276(6):1494-505
references: 19228196
references: Nucleic Acids Res. 2003 Apr 1;31(7):1805-12
references: 12654995
references: Annu Rev Biochem. 2012;81:145-66
references: 22663078
references: Mutat Res. 2004 Mar;566(2):131-67
references: 15164978
references: Nat Rev Mol Cell Biol. 2001 Jun;2(6):433-43
references: 11389467
references: Mol Biol Evol. 2003 Aug;20(8):1260-70
references: 12777502
references: Nature. 2009 Apr 9;458(7239):784-8
references: 19194460
references: Proc Natl Acad Sci U S A. 1999 Jul 6;96(14):7847-52
references: 10393910
references: Genetics. 2012 Jun;191(2):389-406
references: 22446319
references: Biochim Biophys Acta. 2013 Jan;1835(1):28-35
references: 22982062
references: Biochem Soc Trans. 2011 Jan;39(1):15-9
references: 21265740
references: J Biol Chem. 2004 Apr 9;279(15):14945-53
references: 14752111
references: Nucleic Acids Res. 2005 Jun 22;33(11):3598-605
references: 15972856
references: Acta Crystallogr D Biol Crystallogr. 2003 Jan;59(Pt 1):171-3
references: 12499561
references: Mol Biol Evol. 2004 Feb;21(2):207-17
references: 12949131
references: J Mol Biol. 2002 Feb 22;316(3):459-73
references: 11866511
references: Gene. 2009 Dec 15;448(2):207-13
references: 19651192
references: Structure. 2003 Apr;11(4):445-57
references: 12679022
references: Genetics. 2000 Jan;154(1):193-203
references: 10628980
references: J Biol Chem. 2000 Aug 18;275(33):25540-6
references: 10940317
references: Mol Cell Biol. 2000 Jan;20(1):213-23
references: 10594024
references: Wiley Interdiscip Rev RNA. 2011 May-Jun;2(3):417-34
references: 21957027
references: Nat Struct Biol. 2001 Jan;8(1):62-7
references: 11135673
references: Genome Res. 2005 Aug;15(8):1106-17
references: 16077010
references: Gene. 2009 Dec 15;448(2):145-50
references: 19744548
references: Nucleic Acids Res. 1995 Nov 25;23(22):4628-34
references: 8524653
references: Curr Opin Struct Biol. 2009 Jun;19(3):341-8
references: 19481444
references: RNA Biol. 2011 Sep-Oct;8(5):714-8
references: 21734471
references: Methods Cell Biol. 2011;106:187-217
references: 22118278
references: Virus Res. 2008 Jun;134(1-2):221-34
references: 18261821
references: Mol Cell Biol. 1991 Dec;11(12):6139-48
references: 1719380
references: Nucleic Acids Res. 2012 Jan;40(2):e16
references: 22121227
references: Biochem Biophys Res Commun. 2005 Jul 22;333(1):230-40
references: 15939396
references: Nucleic Acids Res. 1990 Feb 25;18(4):785-92
references: 2156231
references: Proteins. 1995 Nov;23(3):318-26
references: 8710825
references: Mol Cell Biol. 1998 Jun;18(6):3455-65
references: 9584185
references: Cytogenet Genome Res. 2005;110(1-4):575-88
references: 16093711
references: Bioessays. 2009 Jul;31(7):703-14
references: 19415638