8KBH

Structure of CbTad1 complexed with 2',3'-cGAMP and cA3

• PDB DOI: https://doi.org/10.2210/pdb8KBH/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Clostridium botulinum, synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-08-04 Released: 2024-08-21 
• Deposition Author(s): Xiao, Y., Feng, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 0.260 
• R-Value Work: 0.231 
• R-Value Observed: 0.232 

Starting Model: in silico

Literature

Structure of CbTad1 complexed with 2',3'-cGAMP and cA3

Xiao, Y., Feng, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 137.74 kDa 
• Atom Count: 11,189 
• Modelled Residue Count: 1,127 
• Deposited Residue Count: 1,132 
• Unique protein chains: 2
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thoeris anti-defense 1	A [auth D], B [auth E], C [auth F], D [auth G], E [auth H], G [auth A], H [auth B], I [auth C]	125	Clostridium botulinum	Mutation(s): 0  Gene Names: tad1
UniProt
Find proteins for P0DW58 (Clostridium botulinum) Explore P0DW58  Go to UniProtKB:  P0DW58

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Thoeris anti-defense 1	F [auth I]	123	Clostridium botulinum	Mutation(s): 0  Gene Names: tad1, ACP51_06460
UniProt
Find proteins for P0DW58 (Clostridium botulinum) Explore P0DW58  Go to UniProtKB:  P0DW58

Entity ID: 3
Molecule	Chains	Length	Organism	Image
(2-ACETYL-5-METHYLANILINO)(2,6-DIBROMOPHENYL)ACETAMIDE	J, K, L	3	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1SY (Subject of Investigation/LOI)	M [auth D], N [auth E], O [auth F], P [auth G], Q [auth H], R [auth I], S [auth A], T [auth B], U [auth C]	cGAMP C20 H24 N10 O13 P2 XRILCFTWUCUKJR-INFSMZHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.54 Å
• R-Value Free: 0.260 
• R-Value Work: 0.231 
• R-Value Observed: 0.232 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 140.725	α = 90
b = 81.244	β = 106.23
c = 128.586	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
xia2	data reduction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-21 
Deposition Author(s): Xiao, Y., Feng, Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2024-08-21
  Type: Initial release