8AA5 | pdb_00008aa5

Cryo-EM structure of the strand transfer complex of the TnsB transposase (type V-K CRISPR-associated transposon)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.46 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.1 of the entry. See complete history


Literature

Structure of the TnsB transposase-DNA complex of type V-K CRISPR-associated transposon.

Tenjo-Castano, F.Sofos, N.Lopez-Mendez, B.Stutzke, L.S.Fuglsang, A.Stella, S.Montoya, G.

(2022) Nat Commun 13: 5792-5792

  • DOI: https://doi.org/10.1038/s41467-022-33504-5
  • Primary Citation of Related Structures:  
    8AA5

  • PubMed Abstract: 

    CRISPR-associated transposons (CASTs) are mobile genetic elements that co-opted CRISPR-Cas systems for RNA-guided transposition. Here we present the 2.4 Å cryo-EM structure of the Scytonema hofmannii (sh) TnsB transposase from Type V-K CAST, bound to the strand transfer DNA. The strand transfer complex displays an intertwined pseudo-symmetrical architecture. Two protomers involved in strand transfer display a catalytically competent active site composed by DDE residues, while other two, which play a key structural role, show active sites where the catalytic residues are not properly positioned for phosphodiester hydrolysis. Transposon end recognition is accomplished by the NTD1/2 helical domains. A singular in trans association of NTD1 domains of the catalytically competent subunits with the inactive DDE domains reinforces the assembly. Collectively, the structural features suggest that catalysis is coupled to protein-DNA assembly to secure proper DNA integration. DNA binding residue mutants reveal that lack of specificity decreases activity, but it could increase transposition in some cases. Our structure sheds light on the strand transfer reaction of DDE transposases and offers new insights into CAST transposition.


  • Organizational Affiliation
    • Structural Molecular Biology Group, Novo Nordisk Foundation Centre for Protein Research, Faculty of Health and Medical Sciences University of Copenhagen, 2200, Copenhagen, Denmark.

Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
TnsBA [auth AP1],
B [auth BP1],
C [auth CP1],
D [auth DP1]
596Scytonema hofmanniiMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
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Entity ID: 2
MoleculeChains LengthOrganismImage
RE_TargetE [auth I]79Scytonema hofmannii
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Entity ID: 3
MoleculeChains LengthOrganismImage
RE_PolyAF [auth J]74Scytonema hofmannii
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Entity ID: 4
MoleculeChains LengthOrganismImage
Target_1G [auth K]15Scytonema hofmannii
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Entity ID: 5
MoleculeChains LengthOrganismImage
LE_TargetH [auth L]80Scytonema hofmannii
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Entity ID: 6
MoleculeChains LengthOrganismImage
LE_PolyAI [auth M]75Scytonema hofmannii
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Entity ID: 7
MoleculeChains LengthOrganismImage
Target_2J [auth N]15Scytonema hofmannii
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.46 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONcryoSPARC3.3.2

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Novo Nordisk FoundationDenmarkNNF0024386
Novo Nordisk FoundationDenmarkNNF14CC0001
Novo Nordisk FoundationDenmarkNNF17SA0030214
Novo Nordisk FoundationDenmarkNNF18OC0055061

Revision History  (Full details and data files)

  • Version 1.0: 2022-10-19
    Type: Initial release
  • Version 1.1: 2024-07-24
    Changes: Data collection