1CLX

CATALYTIC CORE OF XYLANASE A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Work: 0.166 

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This is version 1.2 of the entry. See complete history


Literature

Refined crystal structure of the catalytic domain of xylanase A from Pseudomonas fluorescens at 1.8 A resolution.

Harris, G.W.Jenkins, J.A.Connerton, I.Pickersgill, R.W.

(1996) Acta Crystallogr D Biol Crystallogr 52: 393-401

  • DOI: 10.1107/S0907444995013540
  • Primary Citation of Related Structures:  
    1CLX

  • PubMed Abstract: 
  • The three-dimensional structure of native xylanase A from Pseudomonas flouorescens subspecies cellulosa has been refined at 1.8 A resolution. The space group is P2(1)2(1)2(1) with four molecules in the asymmetric unit. The final model has an R factor of 0 ...

    The three-dimensional structure of native xylanase A from Pseudomonas flouorescens subspecies cellulosa has been refined at 1.8 A resolution. The space group is P2(1)2(1)2(1) with four molecules in the asymmetric unit. The final model has an R factor of 0.166 for 103 749 reflections with the four molecules refined independently. The tertiary structure consists of an eightfold beta/alpha-barrel, the so-called TIM-barrel fold. The active site is in an open cleft at the carboxy-terminal end of the beta/alpha-barrel, and the active-site residues are a pair of glutamates, Glu127 on strand 4 and Glu246 on strand 7. Both these catalytic glutamate residues are found on beta-bulges. An atypically long loop after strand 7 is stabilized by calcium. Unusual features include a non-proline cis-peptide residue Ala80 which is found on a beta-bulge at the end of beta-strand 3. The three beta-bulge type distortions occurring on beta-strands 3, 4 and 7 are functionally significant as they serve to orient important active-site residues. The active-site residues are further held in place by an extensive hydrogen-bonding network of active-site residues in the catalytic site of xylanase A. A chain of well ordered water molecules occupies the substrate-binding cleft, some or all of which are expelled on binding of the substrate.


    Related Citations: 
    • Beta-Glucosidase, Beta-Galactosidase, Family a Cellulases, Family F Xylanases and Two Barley Glycanases Form a Superfamily of Enzymes with 8-Fold Beta/Alpha Architecture and with Two Conserved Glutamates Near the Carboxy-Terminal Ends of Beta-Strands Four and Seven
      Jenkins, J., Lo Leggio, L., Harris, G., Pickersgill, R.
      (1995) FEBS Lett 362: 281
    • Structure of the Catalytic Core of the Family F Xylanase from Pseudomonas Fluorescens and Identification of the Xylopentaose-Binding Sites
      Harris, G.W., Jenkins, J.A., Connerton, I., Cummings, N., Lo Leggio, L., Scott, M., Hazlewood, G.P., Laurie, J.I., Gilbert, H.J., Pickersgill, R.W.
      (1994) Structure 2: 1107
    • Crystallization and Preliminary X-Ray Analysis of the Catalytic Domain of Xylanase a from Pseudomonas Fluorescens Subspecies Cellulosa
      Pickersgill, R.W., Jenkins, J.A., Scott, M., Connerton, I., Hazlewood, G.P., Gilbert, H.J.
      (1993) J Mol Biol 229: 246

    Organizational Affiliation

    Department of Protein Engineering, Institute of Food Research, Reading Laboratory, England.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
XYLANASE AA, B, C, D347Cellvibrio japonicusMutation(s): 0 
Gene Names: TRUNCATED XYNA (CODONS 264-611
EC: 3.2.1.8
UniProt
Find proteins for P14768 (Cellvibrio japonicus (strain Ueda107))
Explore P14768 
Go to UniProtKB:  P14768
Protein Feature View
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Work: 0.166 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 96.11α = 90
b = 97.32β = 90
c = 151.03γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
RESTRAINrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1996-06-20
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance