6IFE

A Glycoside Hydrolase Family 43 beta-Xylosidase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.804 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Biochemical and structural properties of a low-temperature-active glycoside hydrolase family 43 beta-xylosidase: Activity and instability at high neutral salt concentrations.

Zhang, R.Li, N.Liu, Y.Han, X.Tu, T.Shen, J.Xu, S.Wu, Q.Zhou, J.Huang, Z.

(2019) Food Chem 301: 125266-125266

  • DOI: 10.1016/j.foodchem.2019.125266

  • PubMed Abstract: 
  • β-Xylosidase, of the glycoside hydrolase family 43 from Bacillus sp. HJ14, was expressed in Escherichia coli. Recombinant β-xylosidase (rHJ14GH43) exhibited maximum activity at 25 °C, approximately 15, 45, and 88% of maximum activity at 0, 10, and 20 ...

    β-Xylosidase, of the glycoside hydrolase family 43 from Bacillus sp. HJ14, was expressed in Escherichia coli. Recombinant β-xylosidase (rHJ14GH43) exhibited maximum activity at 25 °C, approximately 15, 45, and 88% of maximum activity at 0, 10, and 20 °C, respectively, and poor stability at temperatures over 20 °C. rHJ14GH43 showed moderate or high activity, but poor stability, in NaCl, KCl, NaNO 3 , KNO 3 , Na 2 SO 4 , and (NH 4 ) 2 SO 4 at concentrations from 3.0 to 30.0% (w/v). The crystal structure of rHJ14GH43 was resolved and showed higher structural flexibility due to fewer salt bridges and hydrogen bonds compared to mesophilic and thermophilic β-xylosidases. High structural flexibility is presumed to be a key factor for catalytic adaptations to low temperatures and high salt concentrations. Approximately one-third of the surface of rHJ14GH43 is positively charged, which may be the primary factor responsible for poor stability in high neutral salt environments.


    Organizational Affiliation

    Key Laboratory for Feed Biotechnology of the Ministry of Agriculture, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, PR China.,Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Yunnan Normal University, Kunming 650500, PR China; College of Life Sciences, Yunnan Normal University, Kunming 650500, PR China; Key Laboratory of Yunnan for Biomass Energy and Biotechnology of Environment, Yunnan, Kunming 650500, PR China. Electronic address: huangzunxi@163.com.,Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Yunnan Normal University, Kunming 650500, PR China; College of Life Sciences, Yunnan Normal University, Kunming 650500, PR China; Key Laboratory of Yunnan for Biomass Energy and Biotechnology of Environment, Yunnan, Kunming 650500, PR China. Electronic address: junpeizhou@ynnu.edu.cn.,Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Yunnan Normal University, Kunming 650500, PR China; College of Life Sciences, Yunnan Normal University, Kunming 650500, PR China; Key Laboratory of Yunnan for Biomass Energy and Biotechnology of Environment, Yunnan, Kunming 650500, PR China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-xylosidase
A, B
553N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.804 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.161 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 123.637α = 90.00
b = 106.135β = 122.51
c = 105.884γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHENIXrefinement
HKL-3000phasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31660445

Revision History 

  • Version 1.0: 2019-03-13
    Type: Initial release
  • Version 1.1: 2019-09-25
    Type: Data collection, Database references
  • Version 1.2: 2019-10-02
    Type: Data collection, Database references, Source and taxonomy