9RT6 | pdb_00009rt6

Structure of synthetic C-terminal biotinylated schistosomin with the point mutation D88E from Biomphalaria glabrata in P21 space group

• PDB DOI: https://doi.org/10.2210/pdb9RT6/pdb
• Entry: 9RT6 supersedes: 9FDM

• Classification: TOXIN
• Organism(s): Biomphalaria glabrata
• Mutation(s): Yes 


• Deposited: 2025-07-02 Released: 2025-07-23 
• Deposition Author(s): Morera, S., Vigouroux, A.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.250 (Depositor), 0.249 (DCC) 
• R-Value Work: 
  0.207 (Depositor), 0.202 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Starting Model: in silico

Literature

Synthetic schistosomin from Biomphalaria glabrata

Morera, S., Vigouroux, A., Vicogne, J., Melnyk, O.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 18.66 kDa 
• Atom Count: 1,402 
• Modeled Residue Count: 158 
• Deposited Residue Count: 162 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Schistosomin	A, B	81	Biomphalaria glabrata	Mutation(s): 2
UniProt
Find proteins for P24471 (Lymnaea stagnalis) Explore P24471  Go to UniProtKB:  P24471

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BTN	C [auth A], F [auth B]	BIOTIN C10 H16 N2 O3 S YBJHBAHKTGYVGT-ZKWXMUAHSA-N
SO4	D [auth A], E [auth A], G [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.250 (Depositor), 0.249 (DCC) 
• R-Value Work:  0.207 (Depositor), 0.202 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 21.764	α = 90
b = 38.411	β = 91.23
c = 87.743	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
autoPROC	data processing
autoPROC	data processing
Aimless	data scaling
autoPROC	data processing
autoPROC	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-23 
Deposition Author(s): Morera, S., Vigouroux, A.
• This entry supersedes: 9FDM

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-07-23
  Type: Initial release
  
• Version 1.1: 2025-12-10
  Changes: Database references, Source and taxonomy, Structure summary