2WKK

Identification of the glycan target of the nematotoxic fungal galectin CGL2 in Caenorhabditis elegans

• PDB DOI: https://doi.org/10.2210/pdb2WKK/pdb

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


• Deposited: 2009-06-14 Released: 2010-01-19 
• Deposition Author(s): Butschi, A., Titz, A., Waelti, M., Olieric, V., Paschinger, K., Xiaoqiang, G., Seeberger, P.H., Wilson, I.B.H., Aebi, M., Hengartner, M.O., Kuenzler, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.186 
• R-Value Work: 0.150 
• R-Value Observed: 0.151 

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 68.9 kDa 
• Atom Count: 5,740 
• Modelled Residue Count: 600 
• Deposited Residue Count: 600 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GALECTIN-2	A, B, C, D	150	Coprinopsis cinerea	Mutation(s): 0
UniProt
Find proteins for Q9P4R8 (Coprinopsis cinerea) Explore Q9P4R8  Go to UniProtKB:  Q9P4R8

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-alpha-L-fucopyranose	E	2		N/A
Glycosylation Resources
GlyTouCan:  G61266PA GlyCosmos:  G61266PA GlyGen:  G61266PA

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose	F, G	3		N/A
Glycosylation Resources
GlyTouCan:  G60087WL GlyCosmos:  G60087WL GlyGen:  G60087WL

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-2)-alpha-L-fucopyranose	H	2		N/A
Glycosylation Resources
GlyTouCan:  G23386LT GlyCosmos:  G23386LT GlyGen:  G23386LT

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	I [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	J [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.186 
• R-Value Work: 0.150 
• R-Value Observed: 0.151 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.21	α = 90
b = 80.62	β = 90
c = 120.63	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-01-19 
Deposition Author(s): Butschi, A., Titz, A., Waelti, M., Olieric, V., Paschinger, K., Xiaoqiang, G., Seeberger, P.H., Wilson, I.B.H., Aebi, M., Hengartner, M.O., Kuenzler, M.

Revision History  

• Version 1.0: 2010-01-19
  Type: Initial release
  
• Version 1.1: 2015-01-21
  Changes: Atomic model, Derived calculations, Non-polymer description, Other, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Other, Structure summary
• Version 2.1: 2023-12-13
  Changes: Data collection, Database references, Refinement description, Structure summary