6N44 | pdb_00006n44

Sheep Galectin-11 (LGALS11) complex with glycerol

• PDB DOI: https://doi.org/10.2210/pdb6N44/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Ovis aries
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-11-17 Released: 2020-05-20 
• Deposition Author(s): Beddoe, T.C., Sakthivel, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.238 (Depositor), 0.238 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.193 (DCC) 
• R-Value Observed: 
  0.195 (Depositor) 

Starting Model: experimental

Literature

The oligomeric assembly of galectin-11 is critical for anti-parasitic activity in sheep (Ovis aries).

Sakthivel, D., Preston, S., Gasser, R.B., Costa, T.P.S.D., Hernandez, J.N., Shahine, A., Shakif-Azam, M.D., Lock, P., Rossjohn, J., Perugini, M.A., Gonzalez, J.F., Meeusen, E., Piedrafita, D., Beddoe, T.

(2020) Commun Biol 3: 464-464

• PubMed: 32826940 
• DOI: https://doi.org/10.1038/s42003-020-01179-7
• Primary Citation Related Structures: 
  6N44


• PubMed Abstract: 
  

  Galectins are a family of glycan-binding molecules with a characteristic affinity for ß-D-glycosides that mediate a variety of important cellular functions, including immune and inflammatory responses. Galectin-11 (LGALS-11) has been recently identified as a mediator induced specifically in animals against gastrointestinal nematodes and can interfere with parasite growth and development. Here, we report that at least two natural genetic variants of LGALS-11 exist in sheep, and demonstrate fundamental differences in anti-parasitic activity, correlated with their ability to dimerise. This study improves our understanding of the role of galectins in the host immune and inflammatory responses against parasitic nematodes and provides a basis for genetic studies toward selective breeding of animals for resistance to parasites.

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Organizational Affiliation: 
• Department of Biochemistry and Molecular Biology, Monash University, Clayton, VIC, 3800, Australia.
School of Science, Psychology and, Sport, Federation University, Churchill, VIC, 3842, Australia.
Department of Animal, Plant and Soil Science and Centre for Agri Bioscience (Agri Bio), La Trobe University, Bundoora, VIC, 3086, Australia.
Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Bundoora, VIC, 3010, Australia.
Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Bundoora, VIC, 3086, Australia.
Instituto Universitario de Sanidad Animal, Faculty of Veterinary Medicine, Universidad de Las Palmas de Gran Canaria, Arucas, Spain.
Bioimaging Platform, La Trobe Institute for Molecular Science, La Trobe University, Bundoora, VIC, 3086, Australia.
ARC Centre of Excellence in Advanced Molecular Imaging, Monash University, Clayton, VIC, 3800, Australia.
Department of Biochemistry and Molecular Biology, Monash University, Clayton, VIC, 3800, Australia. [e-mail].
School of Science, Psychology and, Sport, Federation University, Churchill, VIC, 3842, Australia. [e-mail].
Department of Biochemistry and Molecular Biology, Monash University, Clayton, VIC, 3800, Australia. [e-mail].
Department of Animal, Plant and Soil Science and Centre for Agri Bioscience (Agri Bio), La Trobe University, Bundoora, VIC, 3086, Australia. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 125.11 kDa 
• Atom Count: 9,987 
• Modeled Residue Count: 1,076 
• Deposited Residue Count: 1,112 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Galectin	A, B, C, D, E, F, G, H	139	Ovis aries	Mutation(s): 0
UniProt
Find proteins for A0A0A7EMW6 (Ovis aries) Explore A0A0A7EMW6  Go to UniProtKB:  A0A0A7EMW6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	I [auth B], J [auth C], K [auth D], L [auth F], M [auth H]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.238 (Depositor), 0.238 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.193 (DCC) 
• R-Value Observed: 0.195 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.17	α = 90
b = 127.45	β = 90
c = 141.41	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-05-20 
Deposition Author(s): Beddoe, T.C., Sakthivel, D.

Revision History  

• Version 1.0: 2020-05-20
  Type: Initial release
  
• Version 1.1: 2021-08-11
  Changes: Database references
• Version 1.2: 2023-10-11
  Changes: Data collection, Refinement description