2X8R

The structure of a family GH25 lysozyme from Aspergillus fumigatus

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.171 

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This is version 1.1 of the entry. See complete history. 


Literature

The Structure of a Family Gh25 Lysozyme from Aspergillus Fumigatus

Korczynska, J.E., Danielsen, S., Schagerlof, U., Turkenburg, J.P., Davies, G.J., Wilson, K.S., Taylor, E.J.

(2010) Acta Crystallogr Sect F Struct Biol Cryst Commun 66: 973

  • DOI: 10.1107/S1744309110025601
  • Primary Citation of Related Structures:  
    2X8R

  • PubMed Abstract: 

    • Lysins are important biomolecules which cleave the bacterial cell-wall polymer peptidoglycan. They are finding increasing commercial and medical application. In order to gain an insight into the mechanism by which these enzymes operate, the X-ray structure of a CAZy family GH25 ;lysozyme' from Aspergillus fumigatus was determined ...

    Lysins are important biomolecules which cleave the bacterial cell-wall polymer peptidoglycan. They are finding increasing commercial and medical application. In order to gain an insight into the mechanism by which these enzymes operate, the X-ray structure of a CAZy family GH25 ;lysozyme' from Aspergillus fumigatus was determined. This is the first fungal structure from the family and reveals a modified alpha/beta-barrel-like fold in which an eight-stranded beta-barrel is flanked by three alpha-helices. The active site lies toward the bottom of a negatively charged pocket and its layout has much in common with other solved members of the GH25 and related GH families. A conserved active-site DXE motif may be implicated in catalysis, lending further weight to the argument that this glycoside hydrolase family operates via a ;substrate-assisted' catalytic mechanism.

    Organizational Affiliation: 

    Structural Biology Laboratory, Department of Chemistry, The University of York, York YO10 5YW, England.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
GLYCOSYL HYDROLASE
A, B, C, D, E, F
A, B, C, D, E, F
210Aspergillus fumigatus Af293Mutation(s): 0 
Gene Names: AFUA_8G06980
EC: 3.2.1.17
UniProt
Find proteins for A4DA29 (Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100))
Explore A4DA29 
Go to UniProtKB:  A4DA29
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA4DA29
Protein Feature View
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.171 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 80.65α = 90
b = 111.72β = 90
c = 119.16γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-09-08
    Type: Initial release
  • Version 1.1: 2012-04-18
    Changes: Database references, Refinement description, Version format compliance