9GJK | pdb_00009gjk

Entamoeba histolytica Gal/GalNAc lectin bound to LacNAc, mode 1

• PDB DOI: https://doi.org/10.2210/pdb9GJK/pdb
• EM Map EMD-51395: EMDB EMDataResource

• Classification: CELL ADHESION
• Organism(s): Entamoeba histolytica HM-1:IMSS
• Mutation(s): No 


• Deposited: 2024-08-22 Released: 2026-02-11 
• Deposition Author(s): Gerard, S.F., Higgins, M.K.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for carbohydrate recognition by the Gal/GalNAc lectin of Entamoeba histolytica

Gerard, S.F., Higgins, M.K.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 112.87 kDa 
• Atom Count: 7,577 
• Modeled Residue Count: 920 
• Deposited Residue Count: 958 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Galactose/N-acetyl-D-galactosamine lectin heavy subunit 1	A [auth H]	670	Entamoeba histolytica HM-1:IMSS	Mutation(s): 0
UniProt
Find proteins for P32022 (Entamoeba histolytica (strain ATCC 30459 / HM-1:IMSS / ABRM)) Explore P32022  Go to UniProtKB:  P32022
Glycosylation
Glycosylation Sites: 5

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Galactose/N-acetyl-D-galactosamine lectin light subunit 1	B [auth L]	288	Entamoeba histolytica HM-1:IMSS	Mutation(s): 0
UniProt
Find proteins for Q03077 (Entamoeba histolytica (strain ATCC 30459 / HM-1:IMSS / ABRM)) Explore Q03077  Go to UniProtKB:  Q03077

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	C [auth A]	3		N-Glycosylation

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	D [auth B]	7		N-Glycosylation

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E [auth C]	2		N-Glycosylation

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose	F [auth D]	2		N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	G [auth H], H	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 6
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900019	F [auth D]	N-acetyl-alpha-lactosamine	Oligosaccharide / Glycan component

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-11 
Deposition Author(s): Gerard, S.F., Higgins, M.K.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	--

Revision History  

• Version 1.0: 2026-02-11
  Type: Initial release