AF_AFP06668F1

COMPUTED STRUCTURE MODEL OF T-DNA BORDER ENDONUCLEASE VIRD2

There are no experimental data to verify the accuracy of this computed structure model. See Model Confidence metrics below for all regions of the polypeptide chain

• AlphaFold DB: P06668
• Released in AlphaFold DB:  2021-12-09
  Last Modified in AlphaFold DB: 2025-08-01
• Organism(s): Agrobacterium tumefaciens
• UniProtKB: P06668

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Model Confidence 

• pLDDT (global): 66.01
• pLDDT (local):

Model Confidence 

•   Very high (pLDDT > 90)    
•   Confident (70 < pLDDT ≤ 90)    
•   Low (50 < pLDDT ≤ 70)    
•   Very low (pLDDT ≤ 50)    

Computed Structure Models provide per-residue confidence score (pLDDT) between 0 and 100. Some regions below 50 pLDDT may be unstructured in isolation.

Assembly  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Macromolecule Content 

• Total Structure Weight: 47.63 kDa 
• Atom Count: 3,350 
• Modeled Residue Count: 424 
• Deposited Residue Count: 424 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T-DNA border endonuclease VirD2	A	424	Agrobacterium tumefaciens	Mutation(s): 0  Gene Names: virD2 EC: 3.1
UniProt
Find proteins for P06668 (Agrobacterium tumefaciens) Explore P06668  Go to UniProtKB:  P06668