9Q5U | pdb_00009q5u

Crystal structure of Aeromonas salmonicida putative carbohydrate binding module and split domain

• PDB DOI: https://doi.org/10.2210/pdb9Q5U/pdb

• Classification: CELL ADHESION
• Organism(s): Aeromonas salmonicida subsp. salmonicida A449
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-08-21 Released: 2025-09-24 
• Deposition Author(s): Dykstra-MacPherson, T., Ye, Q., Davies, P.L.
• Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.316 (Depositor), 0.315 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.225 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of Aeromonas salmonicida putative carbohydrate binding module and split domain

Dykstra-MacPherson, T., Ye, Q., Davies, P.L.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 34.52 kDa 
• Atom Count: 2,364 
• Modeled Residue Count: 311 
• Deposited Residue Count: 325 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RTX protein	A	325	Aeromonas salmonicida subsp. salmonicida A449	Mutation(s): 0  Gene Names: asx, ASA_0826
UniProt
Find proteins for A4SJA3 (Aeromonas salmonicida (strain A449)) Explore A4SJA3  Go to UniProtKB:  A4SJA3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.316 (Depositor), 0.315 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.225 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M39Q5U

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.279	α = 90
b = 81.231	β = 99.025
c = 56.133	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-24 
Deposition Author(s): Dykstra-MacPherson, T., Ye, Q., Davies, P.L.

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Funding Organization	Location	Grant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	RGPIN-2022-03845

Revision History  

• Version 1.0: 2025-09-24
  Type: Initial release
  
• Version 1.1: 2025-10-15
  Changes: Experimental preparation
• Version 1.2: 2025-10-22
  Changes: Database references