9I4N | pdb_00009i4n

Galectin-3 in Complex with Methyl 6-fluoro-N-acetyllactosaminide

• PDB DOI: https://doi.org/10.2210/pdb9I4N/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-01-25 Released: 2026-02-18 
• Deposition Author(s): Pachl, P.
• Funding Organization(s): Czech Science Foundation, Ministry of Education, Youth and Sports of the Czech Republic

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.07 Å
• R-Value Free: 
  0.232 (Depositor), 0.234 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.211 (DCC) 

Starting Model: experimental

Literature

Unraveling the Structural Variability of Human Galectins-1 and -3 using Selectively Deoxyfluorinated N-acetyllactosamines

Kurfirt, M., Pachl, P., Kaminsky, J., Cervenkova Stastna, L., Hamala, V., Bojarova, P., Cerveny, J., Canada, F.J., Arda, A., Qimeno, A., Delgado, S., Valverde, P., Jimenez-Barbero, J., Hrstka, R., Karban, J.

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)

Biological Assembly Evidence: homology

Macromolecule Content 

• Total Structure Weight: 16.71 kDa 
• Atom Count: 1,497 
• Modeled Residue Count: 138 
• Deposited Residue Count: 139 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Galectin-3	A	139	Homo sapiens	Mutation(s): 0  Gene Names: LGALS3, MAC2
UniProt & NIH Common Fund Data Resources
Find proteins for P17931 (Homo sapiens) Explore P17931  Go to UniProtKB:  P17931
PHAROS:  P17931 GTEx:  ENSG00000131981

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-methyl 2-acetamido-2-deoxy-6-fluoro-6-deoxy-beta-D-glucopyranoside	B [auth C]	2	N/A	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BR	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A]	BROMIDE ION Br CPELXLSAUQHCOX-UHFFFAOYSA-M

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002590	B [auth C]	methyl 6-fluoro-N-acetyllactosaminide	Oligosaccharide / Glycan component

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.07 Å
• R-Value Free:  0.232 (Depositor), 0.234 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.211 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.067	α = 90
b = 58.026	β = 90
c = 63.638	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-18 
Deposition Author(s): Pachl, P.

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Funding Organization	Location	Grant Number
Czech Science Foundation	Czech Republic	23-05146S
Ministry of Education, Youth and Sports of the Czech Republic	Czech Republic	LTC20052

Revision History  

• Version 1.0: 2026-02-18
  Type: Initial release