9FP8 | pdb_00009fp8

Crystal structure of Anopheles gambiae actin depolymerizing factor

• PDB DOI: https://doi.org/10.2210/pdb9FP8/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Anopheles gambiae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-06-13 Released: 2025-02-19 
• Deposition Author(s): Lasiwa, D., Kursula, I.
• Funding Organization(s): Sigrid Juselius Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.68 Å
• R-Value Free: 
  0.338 (Depositor), 0.339 (DCC) 
• R-Value Work: 
  0.297 (Depositor), 0.298 (DCC) 
• R-Value Observed: 
  0.299 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Anopheles gambiae actin depolymerizing factor explains high affinity to monomeric actin.

Lasiwa, D., Kursula, I.

(2025) FEBS J 292: 2381-2397

• PubMed: 39932036 
• DOI: https://doi.org/10.1111/febs.70007
• Primary Citation of Related Structures:  
  9FP8


• PubMed Abstract: 
  

  Actin is an intrinsically dynamic protein, the function and state of which are modulated by actin-binding proteins. Actin-depolymerizing factors (ADF)/cofilins are ubiquitous actin-binding proteins that accelerate actin turnover. Malaria is an infectious disease caused by parasites of the genus Plasmodium, which belong to the phylum Apicomplexa. The parasites require two hosts to complete their life cycle: the definitive host, or the vector, an Anopheles spp. mosquito, and a vertebrate intermediate host, such as humans. Here, the malaria vector Anopheles gambiae ADF (AgADF) crystal structure is reported. AgADF has a conserved ADF/cofilin fold with six central β-strands surrounded by five α-helices with a long β-hairpin loop protruding out of the structure. The G- and F-actin-binding sites of AgADF are conserved, and the structure shows features of potential importance for regulation by membrane binding and redox state. AgADF binds monomeric ATP- and ADP-actin with a high affinity, having a nanomolar K _d , and binds effectively also to actin filaments.

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Organizational Affiliation: 
• Faculty of Biochemistry and Molecular Medicine, University of Oulu, Finland.
Department of Biomedicine, University of Bergen, Norway.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: SAXS

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 34.66 kDa 
• Atom Count: 2,407 
• Modeled Residue Count: 280 
• Deposited Residue Count: 296 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AGAP012056-PA	A, B	148	Anopheles gambiae	Mutation(s): 0  Gene Names: 1280611, AgaP_AGAP012056
UniProt
Find proteins for A0NGL9 (Anopheles gambiae) Explore A0NGL9  Go to UniProtKB:  A0NGL9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4 (Subject of Investigation/LOI)	C [auth A], D [auth A], G [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL (Subject of Investigation/LOI)	E [auth A], F [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.68 Å
• R-Value Free:  0.338 (Depositor), 0.339 (DCC) 
• R-Value Work:  0.297 (Depositor), 0.298 (DCC) 
• R-Value Observed: 0.299 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.014	α = 90
b = 62.423	β = 90
c = 87.272	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-02-19 
Deposition Author(s): Lasiwa, D., Kursula, I.

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Funding Organization	Location	Grant Number
Sigrid Juselius Foundation	Finland	--

Revision History  

• Version 1.0: 2025-02-19
  Type: Initial release
  
• Version 1.1: 2025-05-21
  Changes: Database references