2XFY

Crystal structure of Barley Beta-Amylase complexed with alpha- cyclodextrin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.207 Å
  • R-Value Free: 0.153 
  • R-Value Work: 0.122 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Chemical Genetics and Cereal Starch Metabolism: Structural Basis of the Non-Covalent and Covalent Inhibition of Barley Beta-Amylase.

Rejzek, M.Stevenson, C.E.M.Southard, A.M.Stanley, D.Denyer, K.Smith, A.M.Naldrett, M.J.Lawson, D.M.Field, R.A.

(2011) Mol.Biosyst. 7: 718

  • DOI: 10.1039/c0mb00204f
  • Primary Citation of Related Structures:  2XFF, 2XFR, 2XG9, 2XGB, 2XGI

  • PubMed Abstract: 
  • There are major issues regarding the proposed pathway for starch degradation in germinating cereal grain. Given the commercial importance but genetic intractability of the problem, we have embarked on a program of chemical genetics studies to identif ...

    There are major issues regarding the proposed pathway for starch degradation in germinating cereal grain. Given the commercial importance but genetic intractability of the problem, we have embarked on a program of chemical genetics studies to identify and dissect the pathway and regulation of starch degradation in germinating barley grains. As a precursor to in vivo studies, here we report systematic analysis of the reversible and irreversible inhibition of the major β-amylase of the grain endosperm (BMY1). The molecular basis of inhibitor action was defined through high resolution X-ray crystallography studies of unliganded barley β-amylase, as well as its complexes with glycone site binder disaccharide iminosugar G1M, irreversible inhibitors α-epoxypropyl and α-epoxybutyl glucosides, which target the enzyme's catalytic residues, and the aglycone site binders acarbose and α-cyclodextrin.


    Organizational Affiliation

    Department of Biological Chemistry, John Innes Centre, Colney Lane, Norwich, NR4 7UH, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
BETA-AMYLASE
A
535Hordeum vulgareGene Names: BMY1 (AMYB)
EC: 3.2.1.2
Find proteins for P16098 (Hordeum vulgare)
Go to UniProtKB:  P16098
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
ACX
Query on ACX

Download SDF File 
Download CCD File 
A
ALPHA-CYCLODEXTRIN (CYCLOHEXA-AMYLOSE)
C36 H60 O30
HFHDHCJBZVLPGP-RWMJIURBSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.207 Å
  • R-Value Free: 0.153 
  • R-Value Work: 0.122 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 68.846α = 90.00
b = 71.466β = 90.00
c = 92.472γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
MOSFLMdata reduction
AMoREphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-12-01
    Type: Initial release
  • Version 1.1: 2012-01-11
    Type: Database references, Refinement description, Version format compliance