1QZ3

CRYSTAL STRUCTURE OF MUTANT M211S/R215L OF CARBOXYLESTERASE EST2 COMPLEXED WITH HEXADECANESULFONATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.188 

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Ligand Structure Quality Assessment 


This is version 1.4 of the entry. See complete history


Literature

A substrate-induced switch in the reaction mechanism of a thermophilic esterase: kinetic evidences and structural basis.

De Simone, G.Mandrich, L.Menchise, V.Giordano, V.Febbraio, F.Rossi, M.Pedone, C.Manco, G.

(2004) J Biol Chem 279: 6815-6823

  • DOI: 10.1074/jbc.M307738200
  • Primary Citation of Related Structures:  
    1QZ3

  • PubMed Abstract: 
  • The reaction mechanism of the esterase 2 (EST2) from Alicyclobacillus acidocaldarius was studied at the kinetic and structural level to shed light on the mechanism of activity and substrate specificity increase previously observed in its double mutant M211S/R215L ...

    The reaction mechanism of the esterase 2 (EST2) from Alicyclobacillus acidocaldarius was studied at the kinetic and structural level to shed light on the mechanism of activity and substrate specificity increase previously observed in its double mutant M211S/R215L. In particular, the values of kinetic constants (k1, k(-1), k2, and k3) along with activation energies (E1, E(-1), E2, and E3) were measured for wild type and mutant enzyme. The previously suggested substrate-induced switch in the reaction mechanism from kcat=k3 with a short acyl chain substrate (p-nitrophenyl hexanoate) to kcat=k2 with a long acyl chain substrate (p-nitrophenyl dodecanoate) was validated. The inhibition afforded by an irreversible inhibitor (1-hexadecanesulfonyl chloride), structurally related to p-nitrophenyl dodecanoate, was studied by kinetic analysis. Moreover the three-dimensional structure of the double mutant bound to this inhibitor was determined, providing essential information on the enzyme mechanism. In fact, structural analysis explained the observed substrate-induced switch because of an inversion in the binding mode of the long acyl chain derivatives with respect to the acyl- and alcohol-binding sites.


    Related Citations: 
    • A SNAPSHOT OF THE TRANSITION STATE ANALOGUE OF A NOVEL THERMOPHILIC ESTERASE BELONGING TO THE SUBFAMILY OF MAMMALIAN HORMONE-SENSITIVE LIPASE
      DE SIMONE, G., GALDIERO, S., MANCO, G., LANG, D., ROSSI, M., PEDONE, C.
      (2000) J Mol Biol 303: 761

    Organizational Affiliation

    Istituto di Biostrutture e Bioimmagini-Consiglio Nazionale delle Ricerche, via Mezzocannone 6, 80134 Naples, Italy.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CARBOXYLESTERASE EST2A310Alicyclobacillus acidocaldariusMutation(s): 2 
UniProt
Find proteins for Q7SIG1 (Alicyclobacillus acidocaldarius subsp. acidocaldarius)
Explore Q7SIG1 
Go to UniProtKB:  Q7SIG1
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HDS (Subject of Investigation/LOI)
Query on HDS

Download Ideal Coordinates CCD File 
B [auth A]1-HEXADECANOSULFONIC ACID
C16 H34 O3 S
SSILHZFTFWOUJR-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.188 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.193α = 90
b = 85.193β = 90
c = 103.585γ = 90
Software Package:
Software NamePurpose
MAR345data collection
SCALEPACKdata scaling
AMoREphasing
CNSrefinement

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-03-23
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Advisory, Refinement description
  • Version 1.4: 2019-02-06
    Changes: Advisory, Data collection, Database references, Source and taxonomy, Structure summary