1SBF

SOYBEAN AGGLUTININ

• PDB DOI: https://doi.org/10.2210/pdb1SBF/pdb

• Classification: LECTIN
• Organism(s): Glycine max
• Mutation(s): No 


• Deposited: 1997-10-21 Released: 1998-04-22 
• Deposition Author(s): Olsen, L.R., Dessen, A., Gupta, D., Sabesan, S., Brewer, C.F., Sacchettini, J.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.43 Å
• R-Value Work: 0.187 

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.07 kDa 
• Atom Count: 1,756 
• Modelled Residue Count: 234 
• Deposited Residue Count: 253 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SOYBEAN AGGLUTININ	A	253	Glycine max	Mutation(s): 0
UniProt
Find proteins for P05046 (Glycine max) Explore P05046  Go to UniProtKB:  P05046

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B	2		N/A
Glycosylation Resources
GlyTouCan:  G00055MO GlyCosmos:  G00055MO GlyGen:  G00055MO

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MN	C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N
CA	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.43 Å
• R-Value Work: 0.187 
• Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.64	α = 90
b = 122.64	β = 90
c = 90.56	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
TNT	refinement
XENGEN	data reduction
XENGEN	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-04-22 
Deposition Author(s): Olsen, L.R., Dessen, A., Gupta, D., Sabesan, S., Brewer, C.F., Sacchettini, J.C.

Revision History  

• Version 1.0: 1998-04-22
  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, Structure summary
• Version 2.1: 2023-08-09
  Changes: Database references, Refinement description, Structure summary