Catalytic domain of GH30 xylanase C from Talaromyces cellulolyticus

Experimental Data Snapshot

  • Resolution: 1.65 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.148 

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Crystal structure of GH30-7 endoxylanase C from the filamentous fungus Talaromyces cellulolyticus.

Nakamichi, Y.Fujii, T.Watanabe, M.Matsushika, A.Inoue, H.

(2020) Acta Crystallogr F Struct Biol Commun 76: 341-349

  • DOI: https://doi.org/10.1107/S2053230X20009024
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    GH30-7 endoxylanase C from the cellulolytic fungus Talaromyces cellulolyticus (TcXyn30C) belongs to glycoside hydrolase family 30 subfamily 7, and specifically releases 2 2 -(4-O-methyl-α-D-glucuronosyl)-xylobiose from glucuronoxylan, as well as various arabino-xylooligosaccharides from arabinoxylan. TcXyn30C has a modular structure consisting of a catalytic domain and a C-terminal cellulose-binding module 1 (CBM1). In this study, the crystal structure of a TcXyn30C mutant which lacks the CBM1 domain was determined at 1.65 Å resolution. The structure of the active site of TcXyn30C was compared with that of the bifunctional GH30-7 xylanase B from T. cellulolyticus (TcXyn30B), which exhibits glucuronoxylanase and xylobiohydrolase activities. The results revealed that TcXyn30C has a conserved structural feature for recognizing the 4-O-methyl-α-D-glucuronic acid (MeGlcA) substituent in subsite -2b. Additionally, the results demonstrated that Phe47 contributes significantly to catalysis by TcXyn30C. Phe47 is located in subsite -2b and also near the C-3 hydroxyl group of a xylose residue in subsite -2a. Substitution of Phe47 with an arginine residue caused a remarkable decrease in the catalytic efficiency towards arabinoxylan, suggesting the importance of Phe47 in arabinoxylan hydrolysis. These findings indicate that subsite -2b of TcXyn30C has unique structural features that interact with arabinofuranose and MeGlcA substituents.

  • Organizational Affiliation

    Bioconversion Group, Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology (AIST), 3-11-32 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-0046, Japan.

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
GH30 Xylanase C
A, B
455Talaromyces pinophilus CF-2612Mutation(s): 0 
Find proteins for A0A6N4SL16 (Talaromyces pinophilus)
Explore A0A6N4SL16 
Go to UniProtKB:  A0A6N4SL16
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A6N4SL16
Sequence Annotations
  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Resolution: 1.65 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.148 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.559α = 79.74
b = 52.305β = 88.6
c = 98.535γ = 84.3
Software Package:
Software NamePurpose
XDSdata processing
XDSdata scaling
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-01-20
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Database references, Derived calculations, Refinement description