9SZU | pdb_00009szu

Cerium(III)-bound de novo photoredox enzyme (PLZ2.3)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 
    0.241 (Depositor), 0.246 (DCC) 
  • R-Value Work: 
    0.179 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 
    0.182 (Depositor) 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Validation slider image for 9SZU

This is version 1.2 of the entry. See complete history

Literature

Computational redesign and directed evolution of a lanthanide-dependent photoredox enzyme for enantioselective diol cleavage.

Leiss-Maier, F.Behringer, J.Mustafa, G.Heider, A.Muhlhofer, R.Klein, A.S.Groll, M.Zeymer, C.

(2026) Chem Sci 17: 9552-9561

  • DOI: https://doi.org/10.1039/d5sc08010j
  • Primary Citation Related Structures: 
    9SZU

  • PubMed Abstract: 

    De novo designed metalloenzymes and photoenzymes are a valuable addition to the biocatalytic toolbox. We previously introduced PhotoLanZymes (PLZ), a family of lanthanide-dependent photoredox enzymes that enable radical carbon-carbon bond cleavages of diol substrates upon Ce(iii/iv) binding and visible-light irradiation. While rational optimization increased their catalytic activity and photostability, the first generation of PLZ variants was limited by slow lanthanide binding and a lack of enantioselectivity. Here, we demonstrate that coupling computational redesign with directed evolution provides an effective strategy to overcome these limitations. First, we reduced the cavity size to enhance substrate interactions with the protein's active site, which facilitated initial enantiocontrol. Simultaneously, the AI-guided redesign approach improved the lanthanide binding kinetics. We then performed directed evolution to selectively accelerate the photocatalytic turnover for one of the substrate enantiomers, yielding a PLZ variant with markedly improved enantioselectivity. These results underscore the value of integrating AI-guided protein design with laboratory evolution to obtain stereoselective de novo metalloenzymes and photoenzymes.


  • Organizational Affiliation
    • Center for Functional Protein Assemblies & Department of Bioscience, TUM School of Natural Sciences, Technical University of Munich (TUM) 85748 Garching Germany cathleen.zeymer@tum.de.

Macromolecule Content 

  • Total Structure Weight: 36.75 kDa 
  • Atom Count: 2,567 
  • Modeled Residue Count: 322 
  • Deposited Residue Count: 333 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
PLZ2.3333synthetic constructMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free:  0.241 (Depositor), 0.246 (DCC) 
  • R-Value Work:  0.179 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 0.182 (Depositor) 
Space Group: P 43
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.19α = 90
b = 93.19β = 90
c = 51.24γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union101039592
German Research Foundation (DFG)Germany453748800
German Research Foundation (DFG)Germany439143547

Revision History  (Full details and data files)

  • Version 1.0: 2026-03-25
    Type: Initial release
  • Version 1.1: 2026-04-08
    Changes: Database references
  • Version 1.2: 2026-06-03
    Changes: Database references