6LI7

Crystal Structure of Lectin from Pleurotus ostreatus in complex with GalNAc

• PDB DOI: https://doi.org/10.2210/pdb6LI7/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Pleurotus ostreatus
• Mutation(s): No 


• Deposited: 2019-12-10 Released: 2020-08-05 
• Deposition Author(s): Vajravijayan, S., Pletnev, S., Luo, Z., Ankur, T., Gunasekaran, K., Nandhagopal, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.205 
• R-Value Work: 0.193 

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: light scattering

Macromolecule Content

• Total Structure Weight: 40.76 kDa 
• Atom Count: 2,840 
• Modelled Residue Count: 337 
• Deposited Residue Count: 373 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lectin	A	373	Pleurotus ostreatus	Mutation(s): 0
UniProt
Find proteins for E7E2M2 (Pleurotus ostreatus) Explore E7E2M2  Go to UniProtKB:  E7E2M2

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B, C, D	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NGA (Subject of Investigation/LOI)	I [auth A]	2-acetamido-2-deoxy-beta-D-galactopyranose C8 H15 N O6 OVRNDRQMDRJTHS-JAJWTYFOSA-N
GOL (Subject of Investigation/LOI)	G [auth A], H [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	E [auth A], F [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.205 
• R-Value Work: 0.193 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 152.273	α = 90
b = 152.273	β = 90
c = 145.975	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALA	data scaling
BALBES	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-08-05 
Deposition Author(s): Vajravijayan, S., Pletnev, S., Luo, Z., Ankur, T., Gunasekaran, K., Nandhagopal, N.

Revision History  

• Version 1.0: 2020-08-05
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Derived calculations, Refinement description