1T6G | pdb_00001t6g

Crystal structure of the Triticum aestivum xylanase inhibitor-I in complex with aspergillus niger xylanase-I


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 
    0.192 (Depositor), 0.200 (DCC) 
  • R-Value Work: 
    0.158 (Depositor), 0.169 (DCC) 
  • R-Value Observed: 
    0.162 (Depositor) 

Starting Models: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.5 of the entry. See complete history

Literature

Structural basis for inhibition of Aspergillus niger xylanase by triticum aestivum xylanase inhibitor-I

Sansen, S.De Ranter, C.J.Gebruers, K.Brijs, K.Courtin, C.M.Delcour, J.A.Rabijns, A.

(2004) J Biological Chem 279: 36022-36028

  • DOI: https://doi.org/10.1074/jbc.M404212200
  • Primary Citation Related Structures: 
    1T6E, 1T6G

  • PubMed Abstract: 

    Plants developed a diverse battery of defense mechanisms in response to continual challenges by a broad spectrum of pathogenic microorganisms. Their defense arsenal includes inhibitors of cell wall-degrading enzymes, which hinder a possible invasion and colonization by antagonists. The structure of Triticum aestivum xylanase inhibitor-I (TAXI-I), a first member of potent TAXI-type inhibitors of fungal and bacterial family 11 xylanases, has been determined to 1.7-A resolution. Surprisingly, TAXI-I displays structural homology with the pepsin-like family of aspartic proteases but is proteolytically nonfunctional, because one or more residues of the essential catalytical triad are absent. The structure of the TAXI-I. Aspergillus niger xylanase I complex, at a resolution of 1.8 A, illustrates the ability of tight binding and inhibition with subnanomolar affinity and indicates the importance of the C-terminal end for the differences in xylanase specificity among different TAXI-type inhibitors.


  • Organizational Affiliation
    • Laboratory of Analytical Chemistry and Medicinal Physicochemistry, Katholieke Universiteit Leuven, E. van Evenstraat 4, B-3000 Leuven, Belgium.

Macromolecule Content 

  • Total Structure Weight: 117.88 kDa 
  • Atom Count: 9,142 
  • Modeled Residue Count: 1,100 
  • Deposited Residue Count: 1,130 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
xylanase inhibitor
A, B
381Triticum aestivumMutation(s): 0 
EC: 3.2.1.8
UniProt
Find proteins for Q8H0K8 (Triticum aestivum)
Explore Q8H0K8 
Go to UniProtKB:  Q8H0K8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8H0K8
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Endo-1,4-beta-xylanase I
C, D
184Aspergillus nigerMutation(s): 1 
EC: 3.2.1.8
UniProt
Find proteins for P55329 (Aspergillus niger)
Explore P55329 
Go to UniProtKB:  P55329
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55329
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free:  0.192 (Depositor), 0.200 (DCC) 
  • R-Value Work:  0.158 (Depositor), 0.169 (DCC) 
  • R-Value Observed: 0.162 (Depositor) 
Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.434α = 90
b = 88.434β = 90
c = 128.995γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
AMoREphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-09-28
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.3: 2021-10-27
    Changes: Database references, Derived calculations
  • Version 1.4: 2023-08-23
    Changes: Data collection, Refinement description
  • Version 1.5: 2024-10-16
    Changes: Structure summary