6Y9K | pdb_00006y9k

Esterase EST8 with transacylase activity


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 
    0.239 (Depositor), 0.243 (DCC) 
  • R-Value Work: 
    0.205 (Depositor), 0.212 (DCC) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 6Y9K

This is version 1.1 of the entry. See complete history

Literature

Sequence-Based Prediction of Promiscuous Acyltransferase Activity in Hydrolases.

Muller, H.Becker, A.K.Palm, G.J.Berndt, L.Badenhorst, C.P.S.Godehard, S.P.Reisky, L.Lammers, M.Bornscheuer, U.T.

(2020) Angew Chem Int Ed Engl 59: 11607-11612

  • DOI: https://doi.org/10.1002/anie.202003635
  • Primary Citation Related Structures: 
    6Y9K

  • PubMed Abstract: 

    Certain hydrolases preferentially catalyze acyl transfer over hydrolysis in an aqueous environment. However, the molecular and structural reasons for this phenomenon are still unclear. Herein, we provide evidence that acyltransferase activity in esterases highly correlates with the hydrophobicity of the substrate-binding pocket. A hydrophobicity scoring system developed in this work allows accurate prediction of promiscuous acyltransferase activity solely from the amino acid sequence of the cap domain. This concept was experimentally verified by systematic investigation of several homologous esterases, leading to the discovery of five novel promiscuous acyltransferases. We also developed a simple yet versatile colorimetric assay for rapid characterization of novel acyltransferases. This study demonstrates that promiscuous acyltransferase activity is not as rare as previously thought and provides access to a vast number of novel acyltransferases with diverse substrate specificity and potential applications.


  • Organizational Affiliation
    • Department of Biotechnology & Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, 17487, Greifswald, Germany.

Macromolecule Content 

  • Total Structure Weight: 129.86 kDa 
  • Atom Count: 9,012 
  • Modeled Residue Count: 1,188 
  • Deposited Residue Count: 1,216 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Esterase Est8A [auth AAA],
B [auth BBB],
C [auth CCC],
D [auth DDD]
304metagenomeMutation(s): 0 
EC: 3.1.1.79

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free:  0.239 (Depositor), 0.243 (DCC) 
  • R-Value Work:  0.205 (Depositor), 0.212 (DCC) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.173α = 90
b = 78.18β = 100.68
c = 112.664γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-29
    Type: Initial release
  • Version 1.1: 2024-01-24
    Changes: Data collection, Database references, Derived calculations, Refinement description