4TX6 | pdb_00004tx6

AfChiA1 in complex with compound 1

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 
    0.184 (Depositor), 0.206 (DCC) 
  • R-Value Work: 
    0.154 (Depositor) 
  • R-Value Observed: 
    0.156 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 4TX6

Ligand Structure Quality Assessment 


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

Literature

Screening-based discovery of Aspergillus fumigatus plant-type chitinase inhibitors

Lockhart, D.E., Schuettelkopf, A.W., Blair, D.E., van Aalten, D.M.F.

(2014) FEBS Lett 588: 3282

  • DOI: https://doi.org/10.1016/j.febslet.2014.07.015
  • Primary Citation Related Structures: 
    4TX6, 4TXE

  • PubMed Abstract: 

    A limited therapeutic arsenal against increasing clinical disease due to Aspergillus spp. necessitates urgent characterisation of new antifungal targets. Here we describe the discovery of novel, low micromolar chemical inhibitors of Aspergillus fumigatus family 18 plant-type chitinase A1 (AfChiA1) by high-throughput screening (HTS). Analysis of the binding mode by X-ray crystallography confirmed competitive inhibition and kinetic studies revealed two compounds with selectivity towards fungal plant-type chitinases. These inhibitors provide new chemical tools to probe the effects of chitinase inhibition on A. fumigatus growth and virulence, presenting attractive starting points for the development of further potent drug-like molecules.

    • Organizational Affiliation: 
    • Division of Molecular Microbiology, College of Life Sciences, University of Dundee, Dundee DD1 5EH, United Kingdom.

Macromolecule Content 

  • Total Structure Weight: 70.04 kDa 
  • Atom Count: 5,714 
  • Modeled Residue Count: 619 
  • Deposited Residue Count: 620 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:
|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Class III chitinase ChiA1
A, B
310Aspergillus fumigatus A1163Mutation(s): 0 
Gene Names: AFUB_052270
EC: 3.2.1.14
UniProt
Find proteins for B0Y2Y2 (Aspergillus fumigatus (strain CBS 144.89 / FGSC A1163 / CEA10))
Explore B0Y2Y2 
Go to UniProtKB:  B0Y2Y2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB0Y2Y2
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
38B

Query on 38B


Download:Ideal Coordinates CCD File
C [auth A],
L [auth B]		3-(2-methoxyphenyl)-6-methyl[1,2]oxazolo[5,4-d]pyrimidin-4(5H)-one
C13 H11 N3 O3
XCLPDGVIHJQQOR-UHFFFAOYSA-N
PO4

Query on PO4


Download:Ideal Coordinates CCD File
D [auth A]
E [auth A]
F [auth A]
G [auth A]
H [auth A]
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
J [auth A],
K [auth A],
M [auth B],
N [auth B],
O [auth B],
P [auth B],
Q [auth B],
R [auth B]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free:  0.184 (Depositor), 0.206 (DCC) 
  • R-Value Work:  0.154 (Depositor) 
  • R-Value Observed: 0.156 (Depositor) 
Space Group: I 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.398α = 90
b = 128.514β = 90
c = 212.102γ = 90
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-08-06
    Type: Initial release
  • Version 1.1: 2023-12-20
    Changes: Data collection, Database references, Refinement description
  • Version 1.2: 2024-11-06
    Changes: Structure summary