7C3C

Crystal structure of AofleA from Arthrobotrys oligospora in complex with D-manose


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 
    0.148 (Depositor), 0.150 (DCC) 
  • R-Value Work: 
    0.120 (Depositor), 0.120 (DCC) 
  • R-Value Observed: 
    0.122 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 

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

This is version 1.4 of the entry. See complete history


Literature

Structural insights into the fungi-nematodes interaction mediated by fucose-specific lectin AofleA from Arthrobotrys oligospora.

Liu, M.Cheng, X.Wang, J.Tian, D.Tang, K.Xu, T.Zhang, M.Wang, Y.Wang, M.

(2020) Int J Biol Macromol 164: 783-793

  • DOI: https://doi.org/10.1016/j.ijbiomac.2020.07.173
  • Primary Citation of Related Structures:  
    7C37, 7C38, 7C39, 7C3C, 7C3D, 7C3E

  • PubMed Abstract: 

    Fungal lectin can bind specific carbohydrate structures of the host and work in recognition and adhesion or as a toxic factor. AofleA, as a fucose-specific lectin from widely studied nematode predatory fungus Arthrobotrys oligospora, possibly plays a key role in the event of capturing nematodes, but the mechanism remains unknown. Here we report the crystal structure of AofleA, which exists as a homodimer with each subunit folds as a six-bladed β-propeller. Our structural and biological results revealed that three of the six putative binding sites of AofleA had fucose-binding abilities. In addition, we found that AofleA could bind to the pharynx and intestine of the nematode in a fucose-binding-dependent manner. Our results facilitate the understanding of the mechanism that fucose-specific lectin mediates fungi-nematodes interaction, and provide structural information for the development of potential applications of AofleA.


  • Organizational Affiliation

    School of Life Sciences, Anhui University, Hefei 230601, Anhui, China; Institutes of Physical Science and Information Technology, Anhui University, Hefei 230601, Anhui, China; Key Laboratory of Human Microenvironment and Precision Medicine of Anhui Higher Education Institutes, Anhui University, Hefei 230601, Anhui, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
AofleA
A, B
355Orbilia oligospora ATCC 24927Mutation(s): 0 
Gene Names: AOL_s00076g540
UniProt
Find proteins for G1XA82 (Arthrobotrys oligospora (strain ATCC 24927 / CBS 115.81 / DSM 1491))
Explore G1XA82 
Go to UniProtKB:  G1XA82
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG1XA82
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BMA (Subject of Investigation/LOI)
Query on BMA

Download Ideal Coordinates CCD File 
H [auth A],
L [auth B],
M [auth B]
beta-D-mannopyranose
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
MAN (Subject of Investigation/LOI)
Query on MAN

Download Ideal Coordinates CCD File 
C [auth A]alpha-D-mannopyranose
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
D [auth A]
E [auth A]
F [auth A]
G [auth A]
I [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free:  0.148 (Depositor), 0.150 (DCC) 
  • R-Value Work:  0.120 (Depositor), 0.120 (DCC) 
  • R-Value Observed: 0.122 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.895α = 90
b = 78.972β = 90
c = 135.421γ = 90
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-3000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
PHASERphasing

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 BMAClick on this verticalbar to view detailsBest fitted MANClick on this verticalbar to view details

Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31770066
Other governmentChinaKJ2019ZD02

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-29
    Type: Initial release
  • Version 1.1: 2020-08-05
    Changes: Database references
  • Version 1.2: 2020-08-12
    Changes: Database references, Structure summary
  • Version 1.3: 2020-09-23
    Changes: Structure summary
  • Version 1.4: 2023-11-29
    Changes: Data collection, Database references, Refinement description