5YNS

Crystal strcuture of PETase R280A mutant from Ideonella sakaiensis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.36 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural insight into molecular mechanism of poly(ethylene terephthalate) degradation.

Joo, S.Cho, I.J.Seo, H.Son, H.F.Sagong, H.-Y.Shin, T.J.Choi, S.Y.Lee, S.Y.Kim, K.-J.

(2018) Nat Commun 9: 382-382

  • DOI: 10.1038/s41467-018-02881-1
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Plastics, including poly(ethylene terephthalate) (PET), possess many desirable characteristics and thus are widely used in daily life. However, non-biodegradability, once thought to be an advantage offered by plastics, is causing major environmental ...

    Plastics, including poly(ethylene terephthalate) (PET), possess many desirable characteristics and thus are widely used in daily life. However, non-biodegradability, once thought to be an advantage offered by plastics, is causing major environmental problem. Recently, a PET-degrading bacterium, Ideonella sakaiensis, was identified and suggested for possible use in degradation and/or recycling of PET. However, the molecular mechanism of PET degradation is not known. Here we report the crystal structure of I. sakaiensis PETase (IsPETase) at 1.5 Å resolution. IsPETase has a Ser-His-Asp catalytic triad at its active site and contains an optimal substrate binding site to accommodate four monohydroxyethyl terephthalate (MHET) moieties of PET. Based on structural and site-directed mutagenesis experiments, the detailed process of PET degradation into MHET, terephthalic acid, and ethylene glycol is suggested. Moreover, other PETase candidates potentially having high PET-degrading activities are suggested based on phylogenetic tree analysis of 69 PETase-like proteins.


    Organizational Affiliation

    School of Life Sciences (KNU Creative BioResearch Group), KNU Institute for Microorganisms, Kyungpook National University, Daehak-ro 80, Buk-gu, Daegu, 41566, Republic of Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Poly(ethylene terephthalate) hydrolase
A
264Ideonella sakaiensis (strain 201-F6)Mutation(s): 1 
EC: 3.1.1.101
Find proteins for A0A0K8P6T7 (Ideonella sakaiensis (strain 201-F6))
Go to UniProtKB:  A0A0K8P6T7
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.36 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.161 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 43.607α = 90.00
b = 50.586β = 90.00
c = 129.581γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data collection
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2017-10-25 
  • Released Date: 2018-02-14 
  • Deposition Author(s): Joo, S., Kim, K.-J.

Revision History 

  • Version 1.0: 2018-02-14
    Type: Initial release