8S7Z

Urethanase umg-sp1 without inhibitor or substrate displays flexible active site loops


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.67 Å
  • R-Value Free: 0.323 
  • R-Value Work: 0.260 

Starting Model: in silico
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Literature

Structural Elucidation of a Metagenomic Urethanase and Its Engineering Towards Enhanced Hydrolysis Profiles.

Bayer, T.Palm, G.J.Berndt, L.Meinert, H.Branson, Y.Schmidt, L.Cziegler, C.Somvilla, I.Zurr, C.Graf, L.G.Janke, U.Badenhorst, C.P.S.Konig, S.Delcea, M.Garscha, U.Wei, R.Lammers, M.Bornscheuer, U.T.

(2024) Angew Chem Int Ed Engl 63: e202404492-e202404492

  • DOI: https://doi.org/10.1002/anie.202404492
  • Primary Citation of Related Structures:  
    8S7Z

  • PubMed Abstract: 

    While plastics like polyethylene terephthalate can already be degraded efficiently by the activity of hydrolases, other synthetic polymers like polyurethanes (PUs) and polyamides (PAs) largely resist biodegradation. In this study, we solved the first crystal structure of the metagenomic urethanase UMG-SP-1, identified highly flexible loop regions to comprise active site residues, and targeted a total of 20 potential hot spots by site-saturation mutagenesis. Engineering campaigns yielded variants with single mutations, exhibiting almost 3- and 8-fold improved activity against highly stable N-aryl urethane and amide bonds, respectively. Furthermore, we demonstrated the release of the corresponding monomers from a thermoplastic polyester-PU and a PA (nylon 6) by the activity of a single, metagenome-derived urethanase after short incubation times. Thereby, we expanded the hydrolysis profile of UMG-SP-1 beyond the reported low-molecular weight carbamates. Together, these findings promise advanced strategies for the bio-based degradation and recycling of plastic materials and waste, aiding efforts to establish a circular economy for synthetic polymers.


  • Organizational Affiliation

    University of Greifswald, Institute of Biochemistry, GERMANY.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Urethanase umg-sp1
A, B, C, D
446metagenomeMutation(s): 0 
EC: 3.5.1.75
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.67 Å
  • R-Value Free: 0.323 
  • R-Value Work: 0.260 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 68.175α = 89.994
b = 76.792β = 112.646
c = 95.068γ = 113.64
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-24
    Type: Initial release
  • Version 1.1: 2024-10-09
    Changes: Database references, Structure summary