1K12 | pdb_00001k12

Fucose Binding lectin

• PDB DOI: https://doi.org/10.2210/pdb1K12/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Anguilla anguilla
• Mutation(s): No 


• Deposited: 2001-09-23 Released: 2002-07-31 
• Deposition Author(s): Bianchet, M.A., Odom, E.W., Vasta, G.R., Amzel, L.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.239 (Depositor), 0.189 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.184 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Literature

A novel fucose recognition fold involved in innate immunity.

Bianchet, M.A., Odom, E.W., Vasta, G.R., Amzel, L.M.

(2002) Nat Struct Biol 9: 628-634

• PubMed: 12091873 
• DOI: https://doi.org/10.1038/nsb817
• Primary Citation Related Structures: 
  1K12


• PubMed Abstract: 
  

  Anguilla anguilla agglutinin (AAA), a fucolectin found in the serum of European eel, participates in the recognition of bacterial liposaccharides by the animal innate immunity system. Because AAA specifically recognizes fucosylated terminals of H and Lewis (a) blood groups, it has been used extensively as a reagent in blood typing and histochemistry. AAA contains a newly discovered carbohydrate recognition domain present in proteins of organisms ranging from bacteria to vertebrates. The crystal structure of the complex of AAA with alpha-L-fucose characterizes the novel fold of this entire lectin family, identifying the residues that provide the structural determinants of oligosaccharide specificity. Modification of these residues explains how the different isoforms in serum can provide a diverse pathogen-specific recognition.

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Organizational Affiliation: 
• Department of Biophysics and Biophysical Chemistry, The Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 17.15 kDa 
• Atom Count: 1,325 
• Modeled Residue Count: 158 
• Deposited Residue Count: 158 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LECTIN	A	158	Anguilla anguilla	Mutation(s): 0
UniProt
Find proteins for Q7SIC1 (Anguilla anguilla) Explore Q7SIC1  Go to UniProtKB:  Q7SIC1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FUC	B [auth A]	alpha-L-fucopyranose C6 H12 O5 SHZGCJCMOBCMKK-SXUWKVJYSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.239 (Depositor), 0.189 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.184 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.54	α = 90
b = 65.54	β = 90
c = 245.136	γ = 120

Software Package:

Software Name	Purpose
CrystalClear	data collection
CrystalClear	data reduction
MLPHARE	phasing
DM	model building
CNS	refinement
CrystalClear	data scaling
DM	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-07-31 
Deposition Author(s): Bianchet, M.A., Odom, E.W., Vasta, G.R., Amzel, L.M.

Revision History  

• Version 1.0: 2002-07-31
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Refinement description, Structure summary
• Version 1.4: 2024-11-13
  Changes: Data collection, Database references, Structure summary