8GLU | pdb_00008glu

CryoEM structure of TnsC(1-503) bound to TnsD(1-318) from E.coli Tn7


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.57 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental, other
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wwPDB Validation 3D Report Full Report

Validation slider image for 8GLU

This is version 1.0 of the entry. See complete history

Literature

Assembly of the Tn7 targeting complex by a regulated stepwise process.

Shen, Y.Krishnan, S.S.Petassi, M.T.Hancock, M.A.Peters, J.E.Guarne, A.

(2024) Mol Cell 84: 2368-2381.e6

  • DOI: https://doi.org/10.1016/j.molcel.2024.05.012
  • Primary Citation Related Structures: 
    8GLU, 8GLW, 8GLX, 8VCJ, 8VCT

  • PubMed Abstract: 

    The Tn7 family of transposons is notable for its highly regulated integration mechanisms, including programmable RNA-guided transposition. The targeting pathways rely on dedicated target selection proteins from the TniQ family and the AAA+ adaptor TnsC to recruit and activate the transposase at specific target sites. Here, we report the cryoelectron microscopy (cryo-EM) structures of TnsC bound to the TniQ domain of TnsD from prototypical Tn7 and unveil key regulatory steps stemming from unique behaviors of ATP- versus ADP-bound TnsC. We show that TnsD recruits ADP-bound dimers of TnsC and acts as an exchange factor to release one protomer with exchange to ATP. This loading process explains how TnsC assembles a heptameric ring unidirectionally from the target site. This unique loading process results in functionally distinct TnsC protomers within the ring, providing a checkpoint for target immunity and explaining how insertions at programmed sites precisely occur in a specific orientation across Tn7 elements.


  • Organizational Affiliation
    • Department of Biochemistry, McGill University, Montreal, QC H3G 0B1, Canada; Centre de recherche en biologie structurale (CRBS), McGill University, Montreal, QC H3G 0B1, Canada.

Macromolecule Content 

  • Total Structure Weight: 216.17 kDa 
  • Atom Count: 12,338 
  • Modeled Residue Count: 1,533 
  • Deposited Residue Count: 1,887 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transposon Tn7 transposition protein TnsCA [auth G],
C [auth F],
D [auth E]
523Escherichia coliMutation(s): 1 
Gene Names: tnsC
UniProt
Find proteins for P05846 (Escherichia coli)
Explore P05846 
Go to UniProtKB:  P05846
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05846
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Transposon Tn7 transposition protein TnsDB [auth X]318Escherichia coliMutation(s): 0 
Gene Names: tnsD
UniProt
Find proteins for P13991 (Escherichia coli)
Explore P13991 
Go to UniProtKB:  P13991
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP13991
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ATP
(Subject of Investigation/LOI)

Query on ATP



Download:Ideal Coordinates CCD File
E [auth G],
H [auth F]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
ADP
(Subject of Investigation/LOI)

Query on ADP



Download:Ideal Coordinates CCD File
J [auth E]ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
ZN
(Subject of Investigation/LOI)

Query on ZN



Download:Ideal Coordinates CCD File
G [auth X]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
(Subject of Investigation/LOI)

Query on MG



Download:Ideal Coordinates CCD File
F [auth G],
I [auth F],
K [auth E]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.57 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19.2_4158:

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)CanadaPJT-155941

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-31
    Type: Initial release