1LLO

HEVAMINE A (A PLANT ENDOCHITINASE/LYSOZYME) COMPLEXED WITH ALLOSAMIDIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.200 
  • R-Value Observed: 0.146 

wwPDB Validation   3D Report Full Report


This is version 4.0 of the entry. See complete history


Literature

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: 15619-15623

  • DOI: https://doi.org/10.1021/bi00048a003
  • Primary Citation of Related Structures:  
    1LLO

  • PubMed Abstract: 

    The plant enzyme hevamine has both chitinase and lysozyme activity. HPLC analysis of the products of the hydrolysis of chitopentaose shows that hevamine acts with retention of the configuration, despite the absence of a nucleophilic or stabilizing carboxylate. To analyze the stabilization of a putative oxocarbonium ion intermediate, the X-ray structure of hevamine complexed with the inhibitor allosamidin was determined at 1.85 A resolution. This structure supports the role of Glu127 as a proton donor. The allosamizoline group binds in the center of the active site, mimicking a reaction intermediate in which a positive charge at C1 is stabilized intramolecularly by the carbonyl oxygen of the N-acetyl group at C2.


  • Organizational Affiliation

    BIOSON Research Institute, University of Groningen, The Netherlands.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hevamine-A273Hevea brasiliensisMutation(s): 0 
EC: 3.2.1.14 (PDB Primary Data), 3.2.1.17 (PDB Primary Data)
UniProt
Find proteins for P23472 (Hevea brasiliensis)
Explore P23472 
Go to UniProtKB:  P23472
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP23472
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-allopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-allopyranose
B
2N/A
Glycosylation Resources
GlyTouCan:  G77950XB
GlyCosmos:  G77950XB
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
AMI
Query on AMI

Download Ideal Coordinates CCD File 
C [auth B]ALLOSAMIZOLINE
C9 H16 N2 O4
MKJAYSJDHSEFRI-PVFLNQBWSA-N
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.200 
  • R-Value Observed: 0.146 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.33α = 90
b = 57.99β = 90
c = 82.25γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
TNTrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1996-03-08
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary
  • Version 3.0: 2022-03-09
    Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary
  • Version 4.0: 2022-06-01
    Changes: Atomic model, Data collection, Database references, Derived calculations, Source and taxonomy, Structure summary