7CS6

IiPLR1 with NADP+ and (-)lariciresinol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.198 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structure-based engineering of substrate specificity for pinoresinol-lariciresinol reductases.

Xiao, Y.Shao, K.Zhou, J.Wang, L.Ma, X.Wu, D.Yang, Y.Chen, J.Feng, J.Qiu, S.Lv, Z.Zhang, L.Zhang, P.Chen, W.

(2021) Nat Commun 12: 2828-2828

  • DOI: 10.1038/s41467-021-23095-y
  • Primary Citation of Related Structures:  
    7CSA, 7CSB, 7CSE, 7CSF, 7CSC, 7CSD, 7CS9, 7CS7, 7CS8, 7CS2

  • PubMed Abstract: 
  • Pinoresinol-lariciresinol reductases (PLRs) are enzymes involved in the lignan biosynthesis after the initial dimerization of two monolignols, and this represents the entry point for the synthesis of 8-8' lignans and contributes greatly to their structural diversity ...

    Pinoresinol-lariciresinol reductases (PLRs) are enzymes involved in the lignan biosynthesis after the initial dimerization of two monolignols, and this represents the entry point for the synthesis of 8-8' lignans and contributes greatly to their structural diversity. Of particular interest has been the determination of how differing substrate specificities are achieved with these enzymes. Here, we present crystal structures of IiPLR1 from Isatis indigotica and pinoresinol reductases (PrRs) AtPrR1 and AtPrR2 from Arabidopsis thaliana, in the apo, substrate-bound and product-bound states. Each structure contains a head-to-tail homodimer, and the catalytic pocket comprises structural elements from both monomers. β4 loop covers the top of the pocket, and residue 98 from the loop governs catalytic specificity. The substrate specificities of IiPLR1 and AtPrR2 can be switched via structure-guided mutagenesis. Our study provides insight into the molecular mechanism underlying the substrate specificity of PLRs/PrRs and suggests an efficient strategy for the large-scale commercial production of the pharmaceutically valuable compound lariciresinol.


    Organizational Affiliation

    Department of Pharmacy, Changzheng Hospital, Naval Medical University (Second Military Medical University), Shanghai, China. chenwansheng@shutcm.edu.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Pinoresinol-lariciresinol reductaseA, B, C, D, E, F317Isatis tinctoriaMutation(s): 0 
UniProt
Find proteins for I6LRS1 (Isatis tinctoria)
Explore I6LRS1 
Go to UniProtKB:  I6LRS1
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.198 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 244.441α = 90
b = 244.441β = 90
c = 75.641γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2020-08-14 
  • Released Date: 2021-06-09 
  • Deposition Author(s): Shao, K., Zhang, P.

Revision History  (Full details and data files)

  • Version 1.0: 2021-06-09
    Type: Initial release