6GKE | pdb_00006gke

Aleuria aurantia lectin AAL N224Q mutant in complex with Fucalpha1-6GlcNAc

• PDB DOI: https://doi.org/10.2210/pdb6GKE/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Aleuria aurantia
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-05-19 Released: 2019-06-19 
• Deposition Author(s): Houser, J., Wimmerova, M., Herrera, H., Mehta, A.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.08 Å
• R-Value Free: 
  0.128 (Depositor), 0.140 (DCC) 
• R-Value Work: 
  0.117 (Depositor), 0.130 (DCC) 
• R-Value Observed: 
  0.117 (Depositor) 

Starting Model: experimental

Literature

Structural dynamics and applications of a fucose-binding lectin with enhanced binding to alpha-1,6-linked core fucosylation

Herrera, H., Wang, M., Romano, P., Wimmerova, M., Houser, J., Kortagere, S., Mehta, A.S.

To be published.

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)

Macromolecule Content

• Total Structure Weight: 36.52 kDa 
• Atom Count: 3,108 
• Modelled Residue Count: 309 
• Deposited Residue Count: 324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fucose-specific lectin	A	324	Aleuria aurantia	Mutation(s): 1
UniProt
Find proteins for P18891 (Aleuria aurantia) Explore P18891  Go to UniProtKB:  P18891

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-alpha-D-glucopyranose	B	2		N/A
Glycosylation Resources
GlyTouCan:  G87044VO GlyCosmos:  G87044VO GlyGen:  G87044VO

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FUC (Subject of Investigation/LOI)	C [auth A], E [auth A], F [auth A], G [auth A]	alpha-L-fucopyranose C6 H12 O5 SHZGCJCMOBCMKK-SXUWKVJYSA-N
GOL	D [auth A], H [auth A], J [auth A], K [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO	I [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.08 Å
• R-Value Free:  0.128 (Depositor), 0.140 (DCC) 
• R-Value Work:  0.117 (Depositor), 0.130 (DCC) 
• R-Value Observed: 0.117 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 132.32	α = 90
b = 48.65	β = 103.21
c = 57.61	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-06-19 
Deposition Author(s): Houser, J., Wimmerova, M., Herrera, H., Mehta, A.S.

Revision History  

• Version 1.0: 2019-06-19
  Type: Initial release
  
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Author supporting evidence, Data collection, Derived calculations, Structure summary
• Version 2.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description, Structure summary