Transposase: Difference between revisions

Revision as of 11:10, 5 March 2020

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Structure of Tn5 transposase complex with DNA and glycerol (PDB code 3ecp).

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Function

Transposases bind to the ends of a transposon and catalyze its movement to another part of the genome by a cut-and-paste mechanism^[1].

Mu transposase (MuA) is essential for integration, replication-transposition and excision of bacteriophage Mu DNA into multiple sites of bacterial genome. Mu transposition occurs within the transposome which is a protein-DNA complex which includes 4 subunits of MuA^[2].
Hermes transposase is a fly protein^[3].
Dra2 transposase is a Deinococcus radiodurans protein
Tn5 transposase active site contains the DDE motif which catalyzes the movement of the transposon^[4].
Tn7 transposase is bacterial and highly specific^[5].
Mos1 transposase mediates the movement of Mos1 transposon^[6]
Tc3 transposase mediates the movement of Tc3 transposon in C. elegans^[7]
Sleeping beauty transposase synthetic transposon developed as a non-viral vector for gene therapy^[8]

Structural highlights

Transposase contains a DDE motif in its active site^[9] enabling it to coordinate the binding of divalent metal ions. The metal ions affect transposase reactivity. The DDE motif is conserved in transposases and retroviral integrases and is essential for their activity.

3D structures of transposase

Transposase 3D structures

↑ Ivics Z, Li MA, Mates L, Boeke JD, Nagy A, Bradley A, Izsvak Z. Transposon-mediated genome manipulation in vertebrates. Nat Methods. 2009 Jun;6(6):415-22. doi: 10.1038/nmeth.1332. PMID:19478801 doi:https://dx.doi.org/10.1038/nmeth.1332
↑ Rice P, Mizuuchi K. Structure of the bacteriophage Mu transposase core: a common structural motif for DNA transposition and retroviral integration. Cell. 1995 Jul 28;82(2):209-20. PMID:7628012
↑ Park JM, Evertts AG, Levin HL. The Hermes transposon of Musca domestica and its use as a mutagen of Schizosaccharomyces pombe. Methods. 2009 Nov;49(3):243-7. doi: 10.1016/j.ymeth.2009.05.004. Epub 2009 May, 18. PMID:19450689 doi:https://dx.doi.org/10.1016/j.ymeth.2009.05.004
↑ Reznikoff WS. Transposon Tn5. Annu Rev Genet. 2008;42:269-86. PMID:18680433 doi:https://dx.doi.org/10.1146/annurev.genet.42.110807.091656
↑ Craig NL. Tn7: a target site-specific transposon. Mol Microbiol. 1991 Nov;5(11):2569-73. PMID:1664019
↑ Wang W, Swevers L, Iatrou K. Mariner (Mos1) transposase and genomic integration of foreign gene sequences in Bombyx mori cells. Insect Mol Biol. 2000 Apr;9(2):145-55. PMID:10762422
↑ Colloms SD, van Luenen HG, Plasterk RH. DNA binding activities of the Caenorhabditis elegans Tc3 transposase. Nucleic Acids Res. 1994 Dec 25;22(25):5548-54. PMID:7838706
↑ Ivics Z, Kaufman CD, Zayed H, Miskey C, Walisko O, Izsvak Z. The Sleeping Beauty transposable element: evolution, regulation and genetic applications. Curr Issues Mol Biol. 2004 Jan;6(1):43-55. PMID:14632258
↑ Klenchin VA, Czyz A, Goryshin IY, Gradman R, Lovell S, Rayment I, Reznikoff WS. Phosphate coordination and movement of DNA in the Tn5 synaptic complex: role of the (R)YREK motif. Nucleic Acids Res. 2008 Oct;36(18):5855-62. Epub 2008 Sep 12. PMID:18790806 doi:10.1093/nar/gkn577

References

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Alexander Berchansky

[1] Ivics Z, Li MA, Mates L, Boeke JD, Nagy A, Bradley A, Izsvak Z. Transposon-mediated genome manipulation in vertebrates. Nat Methods. 2009 Jun;6(6):415-22. doi: 10.1038/nmeth.1332. PMID:19478801 doi:https://dx.doi.org/10.1038/nmeth.1332

[2] Rice P, Mizuuchi K. Structure of the bacteriophage Mu transposase core: a common structural motif for DNA transposition and retroviral integration. Cell. 1995 Jul 28;82(2):209-20. PMID:7628012

[3] Park JM, Evertts AG, Levin HL. The Hermes transposon of Musca domestica and its use as a mutagen of Schizosaccharomyces pombe. Methods. 2009 Nov;49(3):243-7. doi: 10.1016/j.ymeth.2009.05.004. Epub 2009 May, 18. PMID:19450689 doi:https://dx.doi.org/10.1016/j.ymeth.2009.05.004

[4] Reznikoff WS. Transposon Tn5. Annu Rev Genet. 2008;42:269-86. PMID:18680433 doi:https://dx.doi.org/10.1146/annurev.genet.42.110807.091656

[5] Craig NL. Tn7: a target site-specific transposon. Mol Microbiol. 1991 Nov;5(11):2569-73. PMID:1664019

[6] Wang W, Swevers L, Iatrou K. Mariner (Mos1) transposase and genomic integration of foreign gene sequences in Bombyx mori cells. Insect Mol Biol. 2000 Apr;9(2):145-55. PMID:10762422

[7] Colloms SD, van Luenen HG, Plasterk RH. DNA binding activities of the Caenorhabditis elegans Tc3 transposase. Nucleic Acids Res. 1994 Dec 25;22(25):5548-54. PMID:7838706

[8] Ivics Z, Kaufman CD, Zayed H, Miskey C, Walisko O, Izsvak Z. The Sleeping Beauty transposable element: evolution, regulation and genetic applications. Curr Issues Mol Biol. 2004 Jan;6(1):43-55. PMID:14632258

[9] Klenchin VA, Czyz A, Goryshin IY, Gradman R, Lovell S, Rayment I, Reznikoff WS. Phosphate coordination and movement of DNA in the Tn5 synaptic complex: role of the (R)YREK motif. Nucleic Acids Res. 2008 Oct;36(18):5855-62. Epub 2008 Sep 12. PMID:18790806 doi:10.1093/nar/gkn577

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@@ Line 19: / Line 19: @@
 </StructureSection>
-==3D structures of transposase==
-Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
-{{#tree:id=OrganizedByTopic|openlevels=0|
-*Mu transposase
-**[[1tns]], [[1tnt]] – MuMuA DNA-binding domain – enterobacteria phage Mu - NMR<br />
-**[[1bcm]], [[1bco]] – MuMuA core domain <br />
-**[[2ezh]], [[2ezi]] – MuMuA Iγ subdomain - NMR<br />
-**[[2ezk]], [[2ezl]] – MuMuA Iβ subdomain - NMR<br />
-**[[4fcy]] – MuMuA + DNA <br />
-*Hermes transposase
-**[[2bw3]] – fTra (mutant) - fly<br />
-**[[4d1q]], [[6dx0]], [[6dww]], [[6dwy]], [[6dwz]] – fTra (mutant) + DNA <br />
-*Dra2 transposase
-**[[2xm3]] – Dra2 + Dra2 transposase binding element + DNA – ''Deinococcus radiodurans'' <br />
-**[[2xma]], [[2xqc]] – Dra2 + DNA <br />
-**[[2xo6]] – Dra2 (mutant) + DNA <br />
-*Tn5 transposase
-**[[1muh]], [[1mus]], [[1mm8]], [[3ecp]], [[4dm0]] – EcTn5 (mutant) + DNA – ''Escherichia coli''<br />
-*Tn7 transposase
-**[[5d17]] – EcTn7 C terminal  <br />
-**[[5d16]] – EcTn7 C terminal (mutant) <br />
-*Mos1 transposase
-**[[2f7t]] – DmMos1 catalytic domain (mutant) – ''Drosophila mauritiana''<br />
-**[[4u7b]], [[5hoo]] – DmMos1 + DNA <br />
-**[[3hos]], [[3hot]], [[4r79]] – DmMos1 (mutant) + DNA <br />
-**[[4mda]], [[4mdb]] – DmMos1 catalytic domain (mutant) + drug<br />
-*Tc3 transposase
-**[[1tc3]], [[1u78]] – Tc3 DNA-binding domain (mutant) + DNA – ''Caenorhabditis elegans''<br />
-*Orfa transposase (Is608)
-**[[2a6m]] – HpOrfa – ''Helicobacter pylori''<br />
-**[[2vhg]], [[2a6o]], [[2vic]], [[2vih]], [[2vju]], [[2vjv]]  – HpOrfa + DNA <br />
-*Sleeping beauty transposase
-**[[5cr4]] – SB catalytic domain – synthetic<br />
-**[[2m8e]] – SB PAI domain – synthetic - NMR<br />
-**[[5unk]] – RED domain – ''Oncorhynchus mykiss'' - NMR<br />
-*DNA-mediated transposase
-**[[6pqr]], [[6pqu]], [[6pqx]], [[6pr5]] – DMT – corn earthworm moth – Cryo EM<br />
-*P element transposase
-**[[6pe2]], [[6p5a]] – DmPET + DNA – Cryo EM<br />
-**[[3kde]] – DmPET THAP domain + DNA <br />
-*Piggyback transposase
-**[[5lme]] – PBT C terminal – cabbage looper - NMR<br />
-}}
 == References ==

Transposase: Difference between revisions

Revision as of 11:10, 5 March 2020

Contents

Function

Structural highlights

3D structures of transposase

References

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