9OJ3 | pdb_00009oj3

Crystal structure of the SpyTag003-SpyCatcher003 complex

• PDB DOI: https://doi.org/10.2210/pdb9OJ3/pdb

• Classification: PEPTIDE BINDING PROTEIN
• Organism(s): Streptococcus pyogenes
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-05-06 Released: 2025-06-25 
• Deposition Author(s): Ralston, C.Y.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.43 Å
• R-Value Free: 
  0.149 (Depositor), 0.149 (DCC) 
• R-Value Work: 
  0.134 (Depositor), 0.134 (DCC) 
• R-Value Observed: 
  0.135 (Depositor) 

Starting Model: experimental

Literature

ALS-ENABLE: creating synergy and opportunity at the Advanced Light Source synchrotron structural biology beamlines

Ralston, C.Y., Gupta, S., del Mundo, J.T., Soe, A.C., Russell, B., Rad, B., Tyler, J., Paul, S., Kahan, D.N., Kristensen, L.G., Subramanian, S., Kidd, S., Burnett, K., Sankaran, B., Classen, S., Progozhin, D., Taylor, J.R., Dickert, J.M., Royal, K.B., Rozales, A., Ortega, S.L., Allaire, M., Nix, J.C., Hura, G.L., Holton, J.M., Hammel, M., Adam, P.D.

(2025) J Synchrotron Radiat 

• DOI: https://doi.org/10.1107/S1600577525004205

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 24.66 kDa 
• Atom Count: 1,653 
• Modeled Residue Count: 190 
• Deposited Residue Count: 190 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fibronectin binding protein	A, C	80	Streptococcus pyogenes	Mutation(s): 0  Gene Names: fba2, E0F66_06355
UniProt
Find proteins for Q8G9G1 (Streptococcus pyogenes) Explore Q8G9G1  Go to UniProtKB:  Q8G9G1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ARG-GLY-VAL-PRO-HIS-ILE-VAL-MET-VAL-ASP-ALA-TYR-LYS-ARG-TYR	B, D	15	Streptococcus pyogenes	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TEW	E [auth B], G [auth D]	6-tungstotellurate(VI) O24 Te W6 JDLYBIMRCSJRQJ-UHFFFAOYSA-M
SO4	F [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.43 Å
• R-Value Free:  0.149 (Depositor), 0.149 (DCC) 
• R-Value Work:  0.134 (Depositor), 0.134 (DCC) 
• R-Value Observed: 0.135 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.338	α = 90
b = 67.49	β = 90
c = 70.072	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-25 
Deposition Author(s): Ralston, C.Y.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM124169

Revision History  

• Version 1.0: 2025-06-25
  Type: Initial release