9FEI | pdb_00009fei

Crystal structure of protein D: defoliating toxin form Fusarium oxysporum f.sp. vasinfectum

• PDB DOI: https://doi.org/10.2210/pdb9FEI/pdb

• Classification: TOXIN
• Organism(s): Fusarium oxysporum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-05-20 Released: 2025-05-28 
• Deposition Author(s): Troilo, F., Doddi, A., Faino, L., Bonaccorsi Di Patti, M.C., Di Matteo, A., Giardina, G.
• Funding Organization(s): Other government, European Union (EU)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 
  0.188 (Depositor), 0.188 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.161 (DCC) 
• R-Value Observed: 
  0.163 (Depositor) 

Literature

Crystal structure of FovDEF: defoliating toxin form Fusarium oxysporum f.sp. vasinfectum

Troilo, F., Doddi, A., Faino, L., Bonaccorsi Di Patti, M.C., Di Matteo, A., Giardina, G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 27.52 kDa 
• Atom Count: 1,680 
• Modeled Residue Count: 185 
• Deposited Residue Count: 239 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Defoliating protein: protein D	A	239	Fusarium oxysporum	Mutation(s): 0
UniProt
Find proteins for A0A2H3FS34 (Fusarium oxysporum f. sp. radicis-cucumerinum) Explore A0A2H3FS34  Go to UniProtKB:  A0A2H3FS34

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	B [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
HG	C [auth A], D [auth A], E [auth A]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free:  0.188 (Depositor), 0.188 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.161 (DCC) 
• R-Value Observed: 0.163 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 27.843	α = 90
b = 50.031	β = 98.91
c = 72.277	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
XDS	data reduction
CRANK2	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-28 
Deposition Author(s): Troilo, F., Doddi, A., Faino, L., Bonaccorsi Di Patti, M.C., Di Matteo, A., Giardina, G.

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Funding Organization	Location	Grant Number
Other government		RM12117A5BDD4AEC
European Union (EU)	European Union	IR0000009

Revision History  

• Version 1.0: 2025-05-28
  Type: Initial release