1FNZ

A bark lectin from robinia pseudoacacia in complex with N-acetylgalactosamine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 
    0.222 (Depositor), 0.210 (DCC) 
  • R-Value Work: 
    0.197 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 
    0.199 (Depositor) 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted A2GClick on this verticalbar to view details

This is version 2.1 of the entry. See complete history


Literature

Structure of a legume lectin from the bark of Robinia pseudoacacia and its complex with N-acetylgalactosamine

Rabijns, A.Verboven, C.Rouge, P.Barre, A.Van Damme, E.J.Peumans, W.J.De Ranter, C.J.

(2001) Proteins 44: 470-478

  • DOI: https://doi.org/10.1002/prot.1112
  • Primary Citation of Related Structures:  
    1FNY, 1FNZ

  • PubMed Abstract: 

    The structure of the bark lectin RPbAI (isoform A4) from Robinia pseudoacacia has been determined by protein crystallography both in the free form and complexed with N-acetylgalactosamine. The free form is refined at 1.80 A resolution to an R-factor of 18.9% whereas the complexed structure has an R-factor of 19.7% at 2.05 A resolution. Both structures are compared to each other and to other available legume lectin structures. The polypeptide chains of the two structures exhibit the characteristic legume lectin tertiary fold. The quaternary structure resembles that of the Phaseolus vulgaris lectin, the soybean agglutinin, and the Dolichos biflorus lectin, but displays some unique features leading to the extreme stability of this lectin.


  • Organizational Affiliation

    Laboratory of Analytical Chemistry and Medicinal Physicochemistry, Faculty of Pharmaceutical Sciences, Leuven, Belgium.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BARK AGGLUTININ I, POLYPEPTIDE A237Robinia pseudoacaciaMutation(s): 0 
UniProt
Find proteins for Q41159 (Robinia pseudoacacia)
Explore Q41159 
Go to UniProtKB:  Q41159
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ41159
Sequence Annotations
Expand
  • Reference Sequence
1FNZ_1
020406080100120140160180200220
1FNZ_1
UNIPROT Q41159
UNMODELED
HYDROPATHY
DISORDER
DISORDERED BINDING
PFAM
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free:  0.222 (Depositor), 0.210 (DCC) 
  • R-Value Work:  0.197 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 0.199 (Depositor) 
Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.622α = 90
b = 76.231β = 90
c = 118.243γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted A2GClick on this verticalbar to view details

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-08-24
    Type: Initial release
  • Version 1.1: 2008-03-04
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary
  • Version 2.1: 2024-03-13
    Changes: Data collection, Database references, Structure summary