8WUP

X-Ray crystal structure of glycoside hydrolase family 6 cellobiohydrolase from Phanerochaete chrysosporium PcCel6A wild-type


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.99 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.154 
  • R-Value Observed: 0.154 

Starting Model: experimental
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Literature

Thermotolerance Mechanism of Fungal GH6 Cellobiohydrolase. Part II. Structural Analysis of Thermotolerant Mutant from the Basidiomycete Phanerochaete chrysosporium.

Yamaguchi, S.Sunagawa, N.Samejima, M.Igarashi, K.

(2024) J Appl Glycosci (1999) 71: 63-72

  • DOI: https://doi.org/10.5458/jag.jag.JAG-2023_0018
  • Primary Citation of Related Structures:  
    8WUP, 8WW5, 8WWT, 8WX6

  • PubMed Abstract: 

    Glycoside hydrolase family 6 cellobiohydrolase (GH6 CBH) is a group of cellulases capable of hydrolyzing crystalline cellulose. However, the synergistic reaction of GH6 CBH with other cellulases is hindered by its relatively low thermotolerance. We previously obtained a thermotolerant double mutant, C240S/C393S, of GH6 CBH from the basidiomycete Phanerochaete chrysosporium ( Pc Cel6A) by replacing the two free cysteine (Cys) residues, C240 and C393, with serine (Yamaguchi et al ., J Appl Glycosci. 2020; 67;79-86). In the accompanying paper (Part I; Yamaguchi et al ., J Appl Glycosci. 2024; 71: 55-62), we measured the temperature dependence of the activity and folding of C240S/C393S and its single mutants, C240S and C393S, and found that replacement of C393 was the major contributor to the increased thermotolerance of C240S/C393S. Here, in order to investigate the mechanism involved, we crystallized the wild-type and the mutant enzymes and compared their X-ray crystal structures. The overall structures of the wild-type and the three mutant enzymes were similar. However, C240S/C393S had the lowest relative B -factor at both the N-terminal loop (residues 172-177) and the C-terminal loop (residues 390-425). This result suggests that reduced structural fluctuation of the substrate-enclosing loops, possibly due to stronger hydrogen bonding involving C393, could account for the increased thermotolerance of C240S/C393S.


  • Organizational Affiliation

    1 Department of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, The University of Tokyo.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glucanase358Phanerodontia chrysosporiumMutation(s): 0 
Gene Names: cel6A
UniProt
Find proteins for H3K419 (Phanerodontia chrysosporium)
Explore H3K419 
Go to UniProtKB:  H3K419
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupH3K419
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.99 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.154 
  • R-Value Observed: 0.154 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.712α = 90
b = 67.367β = 90
c = 88.05γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan22J12651

Revision History  (Full details and data files)

  • Version 1.0: 2024-09-04
    Type: Initial release