2HVM

HEVAMINE A AT 1.8 ANGSTROM RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.149 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The 1.8 A resolution structure of hevamine, a plant chitinase/lysozyme, and analysis of the conserved sequence and structure motifs of glycosyl hydrolase family 18.

Terwisscha van Scheltinga, A.C.Hennig, M.Dijkstra, B.W.

(1996) J.Mol.Biol. 262: 243-257

  • DOI: 10.1006/jmbi.1996.0510

  • PubMed Abstract: 
  • The three-dimensional structure of hevamine, a plant enzyme with chitinase and lysozyme activity, has been refined at 1.8 A resolution to an R-factor of 14.9% and a free R-factor of 19.6%. The final model consists of all 273 amino acid residues and 2 ...

    The three-dimensional structure of hevamine, a plant enzyme with chitinase and lysozyme activity, has been refined at 1.8 A resolution to an R-factor of 14.9% and a free R-factor of 19.6%. The final model consists of all 273 amino acid residues and 206 ordered water molecules. Two non-proline cis-peptides were identified, involving Phe32 and Trp255, both of which are implicated in substrate binding. Other glycosyl hydrolase family 18 proteins with known three-dimensional structure are bacterial chitinase A, endo-beta-N-acetylglucosaminidase F1, endo-beta-N-acetylglucosaminidase H, and the two plant proteins concanavalin B and narbonin, which have no known enzymatic activity. All these structures contain a (beta alpha)8 barrel fold, with the two family 18 consensus regions roughly corresponding to the third and fourth barrel strands. This confirms the grouping of these proteins into family 18, which was only based on weak and local sequence similarity. The substrate specificity of the enzymes is determined by the loops following the barrel strands that form the substrate binding site. All enzymes have an aspartic acid and a glutamic acid residue in positions identical with Asp 125 and the catalytic Glu127 of hevamine. The lack of chitinase activity of concanavalin B and narbonin can be explained by the absence of one of these carboxylate groups, and by differences in the loops that form the substrate-binding cleft in hevamine.


    Related Citations: 
    • Crystallization of Hevamine, an Enzyme with Lysozyme/Chitinase Activity from Hevea Brasiliensis Latex
      Rozeboom, H.J.,Budiani, A.,Beintema, J.J.,Dijkstra, B.W.
      (1990) J.Mol.Biol. 212: 441
    • Crystal Structures of Hevamine, a Plant Defence Protein with Chitinase and Lysozyme Activity, and its Complex with an Inhibitor
      Terwisscha Van Scheltinga, A.C.,Kalk, K.H.,Beintema, J.J.,Dijkstra, B.W.
      (1994) Structure 2: 1181
    • Stereochemistry of Chitin Hydrolysis by a Plant Chitinase/Lysozyme and X-Ray Structure of a Complex with Allosamidin. Evidence for Substrate Assisted Catalysis
      Terwisscha Van Scheltinga, A.C.,Armand, S.,Kalk, K.H.,Isogai, A.,Henrissat, B.,Dijkstra, B.W.
      (1995) Biochemistry 34: 15619


    Organizational Affiliation

    BIOSON Research Institute and Laboratory of Biophysical Chemistry, University of Groningen, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HEVAMINE
A
273Hevea brasiliensisMutation(s): 0 
Find proteins for P23472 (Hevea brasiliensis)
Go to UniProtKB:  P23472
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.149 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 52.300α = 90.00
b = 57.720β = 90.00
c = 82.050γ = 90.00
Software Package:
Software NamePurpose
TNTrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-01-11
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance