9BW1

TnsABCD-DNA transpososome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Structure of TnsABCD transpososome reveals mechanisms of targeted DNA transposition.

Wang, S.Siddique, R.Hall, M.C.Rice, P.A.Chang, L.

(2024) Cell 

  • DOI: https://doi.org/10.1016/j.cell.2024.09.023
  • Primary Citation of Related Structures:  
    9BW1

  • PubMed Abstract: 

    Tn7-like transposons are characterized by their ability to insert specifically into host chromosomes. Recognition of the attachment (att) site by TnsD recruits the TnsABC proteins to form the transpososome and facilitate transposition. Although this pathway is well established, atomic-level structural insights of this process remain largely elusive. Here, we present the cryo-electron microscopy (cryo-EM) structures of the TnsC-TnsD-att DNA complex and the TnsABCD transpososome from the Tn7-like transposon in Peltigera membranacea cyanobiont 210A, a type I-B CRISPR-associated transposon. Our structures reveal a striking bending of the att DNA, featured by the intercalation of an arginine side chain of TnsD into a CC/GG dinucleotide step. The TnsABCD transpososome structure reveals TnsA-TnsB interactions and demonstrates that TnsC not only recruits TnsAB but also directly participates in the transpososome assembly. These findings provide mechanistic insights into targeted DNA insertion by Tn7-like transposons, with implications for improving the precision and efficiency of their genome-editing applications.


  • Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA.


Macromolecules

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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
TnsDG [auth J]462Peltigera membranaceaMutation(s): 0 
Gene Names: CDG76_08985
UniProt
Find proteins for A0A235IGG7 (Nostoc sp. 'Peltigera membranacea cyanobiont' 210A)
Explore A0A235IGG7 
Go to UniProtKB:  A0A235IGG7
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UniProt GroupA0A235IGG7
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Integrase898Peltigera membranaceaMutation(s): 2 
Gene Names: CDG76_08995
UniProt
Find proteins for A0A235IFR8 (Nostoc sp. 'Peltigera membranacea cyanobiont' 210A)
Explore A0A235IFR8 
Go to UniProtKB:  A0A235IFR8
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UniProt GroupA0A235IFR8
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
TnsC383Peltigera membranaceaMutation(s): 0 
Gene Names: CDG76_08990
UniProt
Find proteins for A0A235IFM2 (Nostoc sp. 'Peltigera membranacea cyanobiont' 210A)
Explore A0A235IFM2 
Go to UniProtKB:  A0A235IFM2
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UniProt GroupA0A235IFM2
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Entity ID: 1
MoleculeChains LengthOrganismImage
LE_polyAA [auth 2]85Peltigera membranacea
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Entity ID: 2
MoleculeChains LengthOrganismImage
RE_targetB [auth 4]200Peltigera membranacea
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Entity ID: 3
MoleculeChains LengthOrganismImage
RE_polyAC [auth 5]173Peltigera membranacea
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Entity ID: 4
MoleculeChains LengthOrganismImage
Target_downstreamD [auth 6]37Peltigera membranacea
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Entity ID: 5
MoleculeChains LengthOrganismImage
Target_valE [auth H]69Peltigera membranacea
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Entity ID: 6
MoleculeChains LengthOrganismImage
tRNA_LE_LUEGOF [auth I]158Peltigera membranacea
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ATP (Subject of Investigation/LOI)
Query on ATP

Download Ideal Coordinates CCD File 
EA [auth Q]
GA [auth R]
IA [auth S]
KA [auth T]
MA [auth U]
EA [auth Q],
GA [auth R],
IA [auth S],
KA [auth T],
MA [auth U],
OA [auth V],
QA [auth W]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
BA [auth J],
CA [auth J]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG (Subject of Investigation/LOI)
Query on MG

Download Ideal Coordinates CCD File 
AA [auth I]
DA [auth M]
FA [auth Q]
HA [auth R]
JA [auth S]
AA [auth I],
DA [auth M],
FA [auth Q],
HA [auth R],
JA [auth S],
LA [auth T],
NA [auth U],
PA [auth V],
RA [auth W],
Y [auth 4],
Z [auth I]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2024-10-16
    Type: Initial release