8WC0 | pdb_00008wc0

Crystal structure of EcThsA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 
    0.228 (Depositor), 0.228 (DCC) 
  • R-Value Work: 
    0.188 (Depositor), 0.188 (DCC) 
  • R-Value Observed: 
    0.189 (Depositor) 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Self-association activates ThsB NAD + hydrolase for defense against phage infection.

Luo, Q.Liu, Q.Liu, T.Wang, X.Wu, X.Chen, Q.Yu, Y.

(2025) Biochem Biophys Res Commun 776: 152217-152217

  • DOI: https://doi.org/10.1016/j.bbrc.2025.152217
  • Primary Citation of Related Structures:  
    8WC0, 8WCF

  • PubMed Abstract: 

    Toll/interleukin-1 receptor (TIR) domain serves as a canonical component in both animal and plant innate immunity pathways and is indicated, in some cases, to mediate nicotinamide adenine dinucleotide (NAD + ) cleavage via self-association. Recent studies have revealed the involvement of TIR domains in a bacterial anti-phage defense system called Thoeris. The Thoeris system consists of two core proteins, ThsA and ThsB. Phage infection triggers the TIR-containing ThsB to produce an isomer of cyclic ADP-ribose, which is then transferred to and activates ThsA, leading to NAD + depletion and subsequent cell death. However, the mechanism of ThsB activation remains elusive. Here, we present high-resolution crystal structures of E. coli ThsA and ThsB. Notably, an intact NAD + molecule is observed in the active site of ThsB, implying that monomeric ThsB does not possess NADase activity. We demonstrate that ThsB forms 7-fold oligomers through negative staining electron microscopy, suggesting that self-association activates ThsB NAD + hydrolase. Our findings indicate a new TIR self-association assembly in bacterial anti-phage systems.


  • Organizational Affiliation
    • Department of Biotherapy, Cancer Center and State Key Laboratory of Biotherapy, West China Hospital, Sichuan University, Chengdu, 610041, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(+) hydrolase ThsA
A, B
485Escherichia coliMutation(s): 0 
Gene Names: BANRA_02940
EC: 3.2.2.5
UniProt
Find proteins for A0A0J6NHD9 (Chromobacterium sp. LK11)
Explore A0A0J6NHD9 
Go to UniProtKB:  A0A0J6NHD9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0J6NHD9
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download Ideal Coordinates CCD File 
D [auth A],
E [auth A],
G [auth B],
H [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

Download Ideal Coordinates CCD File 
C [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
NA
Query on NA

Download Ideal Coordinates CCD File 
F [auth A],
I [auth B],
J [auth B],
K [auth B]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free:  0.228 (Depositor), 0.228 (DCC) 
  • R-Value Work:  0.188 (Depositor), 0.188 (DCC) 
  • R-Value Observed: 0.189 (Depositor) 
Space Group: P 42 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 250.64α = 90
b = 250.64β = 90
c = 50.701γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-09-18
    Type: Initial release
  • Version 1.1: 2025-07-02
    Changes: Database references, Structure summary