1AX0

ERYTHRINA CORALLODENDRON LECTIN IN COMPLEX WITH N-ACTYLGALACTOSAMINE

• PDB DOI: https://doi.org/10.2210/pdb1AX0/pdb

• Classification: LECTIN
• Organism(s): Erythrina corallodendron
• Mutation(s): No 


• Deposited: 1997-10-24 Released: 1998-05-06 
• Deposition Author(s): Shaanan, B., Elgavish, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.200 
• R-Value Work: 0.180 
• R-Value Observed: 0.180 

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 27.73 kDa 
• Atom Count: 2,162 
• Modelled Residue Count: 239 
• Deposited Residue Count: 239 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LECTIN	A	239	Erythrina corallodendron	Mutation(s): 0
UniProt
Find proteins for P16404 (Erythrina corallodendron) Explore P16404  Go to UniProtKB:  P16404

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-xylopyranose-(1-2)-[alpha-D-mannopyranose-(1-3)][alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose	B	7		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G26295XE GlyCosmos:  G26295XE GlyGen:  G26295XE

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A2G	C [auth A]	2-acetamido-2-deoxy-alpha-D-galactopyranose C8 H15 N O6 OVRNDRQMDRJTHS-CBQIKETKSA-N
MN	D [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N
CA	E [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
NGA	PDBBind:  1AX0	Kd: 7.46e+5 (nM) from 1 assay(s)
A2G	Binding MOAD:  1AX0	Ka: 1340 (M^-1) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.200 
• R-Value Work: 0.180 
• R-Value Observed: 0.180 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.22	α = 90
b = 72.98	β = 113.33
c = 71.26	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
CNS	refinement
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-05-06 
Deposition Author(s): Shaanan, B., Elgavish, S.

Revision History  

• Version 1.0: 1998-05-06
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, 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: 2024-04-03
  Changes: Advisory, Data collection, Database references, Refinement description, Structure summary