Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 56.56 kDa 
• Atom Count: 4370 
• Modelled Residue Count: 478 
• Deposited Residue Count: 484 
• Unique protein chains: 1

1UZY

Erythrina crystagalli lectin

• PDB DOI: 10.2210/pdb1UZY/pdb

• Classification: LECTIN
• Organism(s): Erythrina crista-galli
• Mutation(s): No 


• Deposited: 2004-03-19 Released: 2004-06-22 
• Deposition Author(s): Turton, K., Natesh, R., Thiyagarajan, N., Chaddock, J.A., Acharya, K.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.209 
• R-Value Work: 0.189 
• R-Value Observed: 0.189 

Literature

Crystal structures of Erythrina cristagalli lectin with bound N-linked oligosaccharide and lactose.

Turton, K., Natesh, R., Thiyagarajan, N., Chaddock, J.A., Acharya, K.R.

(2004) Glycobiology 14: 923-929

• PubMed: 15201215 
• DOI: 10.1093/glycob/cwh114
• Primary Citation of Related Structures:  
  1UZY, 1UZZ, 1V00


• PubMed Abstract: 
  

Erythrina cristagalli lectin (ECL) is a galactose-specific legume lectin. Although its biological function in the legume is unknown, ECL exhibits hemagglutinating activity in vitro and is mitogenic for T lymphocytes. In addition, it has been recently shown that ECL forms a novel conjugate when coupled to a catalytically active derivative of the type A neurotoxin from Clostridium botulinum, thus providing a therapeutic potential. ECL is biologically active as a dimer in which each protomer contains a functional carbohydrate-combining site. The crystal structure of native ECL was recently reported in complex with lactose and 2'-fucosyllactose. ECL protomers adopt the legume lectin fold but form non-canonical dimers via the handshake motif as was previously observed for Erythrina corallodendron lectin. Here we report the crystal structures of native and recombinant forms of the lectin in three new crystal forms, both unliganded and in complex with lactose. For the first time, the detailed structure of the glycosylated hexasaccharide for native ECL has been elucidated. The structure also shows that in the crystal lattice the glycosylation site and the carbohydrate binding site are involved in intermolecular contacts through water-mediated interactions.

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Organizational Affiliation: 

Department of Biology and Biochemistry, University of Bath, Claverton Down, Bath BA2 7AY, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lectin	A, B	242	Erythrina crista-galli	Mutation(s): 0  Gene Names: ECL
UniProt
Find proteins for Q6YD91 (Erythrina crista-galli) Explore Q6YD91  Go to UniProtKB:  Q6YD91

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose	C	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G11971MR GlyCosmos:  G11971MR GlyGen:  G11971MR

Entity ID: 3
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
beta-D-galactopyranose-(1-4)-beta-D-glucopyranose	D, F	2		N/A
Glycosylation Resources
GlyTouCan:  G84224TW GlyCosmos:  G84224TW GlyGen:  G84224TW

Entity ID: 4
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
beta-D-xylopyranose-(1-2)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose	E	6		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G70898UD GlyCosmos:  G70898UD GlyGen:  G70898UD

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	G [auth A], H [auth A], K [auth B], L [auth B]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
MN	J [auth A], N [auth B]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N
CA	I [auth A], M [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900004	D, F	beta-lactose	Oligosaccharide / Nutrient		Ligand Interaction

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.209 
• R-Value Work: 0.189 
• R-Value Observed: 0.189 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 134.018	α = 90
b = 134.018	β = 90
c = 81.636	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-03-19 
• Released Date: 2004-06-22 
Deposition Author(s): Turton, K., Natesh, R., Thiyagarajan, N., Chaddock, J.A., Acharya, K.R.

Revision History  

• Version 1.0: 2004-06-22
  Type: Initial release
  
• Version 1.1: 2011-05-07
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-06-20
  Changes: Data collection, Database references, Source and taxonomy, Structure summary
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary