1ULE | pdb_00001ule

CGL2 in complex with linear B2 trisaccharide

• PDB DOI: https://doi.org/10.2210/pdb1ULE/pdb

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


• Deposited: 2003-09-12 Released: 2004-04-20 
• Deposition Author(s): Walser, P.J., Haebel, P.W., Kuenzler, M., Kues, U., Aebi, M., Ban, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.231 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.188 (DCC) 

Starting Model: experimental

Literature

Structure and Functional Analysis of the Fungal Galectin CGL2

Walser, P.J., Haebel, P.W., Kuenzler, M., Sargent, D., Kues, U., Aebi, M., Ban, N.

(2004) Structure 12: 689-702

• PubMed: 15062091 
• DOI: https://doi.org/10.1016/j.str.2004.03.002
• Primary Citation Related Structures: 
  1UL9, 1ULC, 1ULD, 1ULE, 1ULF, 1ULG


• PubMed Abstract: 
  

  Recognition of and discrimination between potential glyco-substrates is central to the function of galectins. Here we dissect the fundamental parameters responsible for such selectivity by the fungal representative, CGL2. The 2.1 A crystal structure of CGL2 and five substrate complexes reveal that this prototype galectin achieves increased substrate specificity by accommodating substituted oligosaccharides of the mammalian blood group A/B type in an extended binding cleft. Kinetic studies on wild-type and mutant CGL2 proteins demonstrate that the tetrameric organization is essential for functionality. The geometric constraints due to the orthogonal orientation of the four binding sites have important consequences on substrate binding and selectivity.

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Organizational Affiliation: 
• Institute of Microbiology, Swiss Federal Institute of Technology, Schmelzbergstrasse 7, CH-8092, Zurich, Switzerland.

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,PQS (software)

Macromolecule Content 

• Total Structure Weight: 34.62 kDa 
• Atom Count: 2,746 
• Modeled Residue Count: 300 
• Deposited Residue Count: 300 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
galectin-2	A, B	150	Coprinopsis cinerea	Mutation(s): 0  Gene Names: cgl2
UniProt
Find proteins for Q9P4R8 (Coprinopsis cinerea) Explore Q9P4R8  Go to UniProtKB:  Q9P4R8

Oligosaccharides

Help  

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-galactopyranose-(1-3)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	C, D	3		N/A
Glycosylation Resources
GlyTouCan: G03499BP GlyCosmos: G03499BP GlyGen: G03499BP

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.231 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.188 (DCC) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.315	α = 90
b = 66.315	β = 90
c = 218.469	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-04-20 
Deposition Author(s): Walser, P.J., Haebel, P.W., Kuenzler, M., Kues, U., Aebi, M., Ban, N.

Revision History  

• Version 1.0: 2004-04-20
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-12-27
  Changes: Data collection, Database references, Structure summary
• Version 2.2: 2024-04-03
  Changes: Refinement description