2YDP

Structure of the E242A mutant of the alpha-l-arabinofuranosidase arb93a from fusarium graminearum in complex with an iminosugar inhibitor

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.171 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Literature

Alpha-L-Arabinofuranosylated Pyrrolidines as Arabinanase Inhibitors.

Goddard-Borger, E.D., Carapito, R., Jeltsch, J., Phalip, V., Stick, R.V., Varrot, A.

(2011) Chem.Commun.(Camb.) 47: 9684

  • DOI: 10.1039/c1cc13675e
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • As part of continued efforts to understand the mechanisms of 1,5-α-l-arabinanases better, some arabinan-like iminosugar oligosaccharides were synthesized. An iminosugar analogue of arabinobiose was found to be a good inhibitor of the arabinanase Arb9 ...

    As part of continued efforts to understand the mechanisms of 1,5-α-l-arabinanases better, some arabinan-like iminosugar oligosaccharides were synthesized. An iminosugar analogue of arabinobiose was found to be a good inhibitor of the arabinanase Arb93A from Fusarium graminearum. Structures were determined for complexes of this inhibitor with wild-type Arb93A and a catalytically inactive mutant.

    Organizational Affiliation: 

    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, 35 Stirling Highway, Crawley, WA 6009, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
EXO-1,5-ALPHA-L-ARABINOFURANOBIOSIDASE
A, B, C
367Gibberella zeaeMutation(s): 1 
Gene Names: arb93a
EC: 3.2.1.55
Find proteins for B8ZY56 (Gibberella zeae)
Go to UniProtKB:  B8ZY56
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDG
Query on EDG
Download SDF File 
Download CCD File 
A, B, C
1,4-DIDEOXY-1,4-IMINO-L-ARABINITOL
C5 H11 N O3
OQEBIHBLFRADNM-YUPRTTJUSA-N
 Ligand Interaction
AHR
Query on AHR
Download SDF File 
Download CCD File 
A, B, C
ALPHA-L-ARABINOFURANOSE
C5 H10 O5
HMFHBZSHGGEWLO-QMKXCQHVSA-N
 Ligand Interaction
CA
Query on CA
Download SDF File 
Download CCD File 
A, B, C
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.171 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 56.930α = 90.14
b = 57.800β = 93.55
c = 91.600γ = 114.50
Software Package:
Software NamePurpose
MOSFLMdata reduction
REFMACrefinement
PHASERphasing
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-07-13
    Type: Initial release
  • Version 1.1: 2011-11-16
    Type: Database references, Refinement description, Version format compliance
  • Version 1.2: 2015-04-01
    Type: Database references