3O26

The structure of salutaridine reductase from Papaver somniferum.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The atomic structure of salutaridine reductase from the opium poppy Papaver somniferum.

Higashi, Y.Kutchan, T.M.Smith, T.J.

(2010) J.Biol.Chem. 66: 163-166

  • DOI: 10.1074/jbc.M110.168633

  • PubMed Abstract: 
  • The opium poppy (Papaver somniferum L.) is one of the oldest known medicinal plants. In the biosynthetic pathway for morphine and codeine, salutaridine is reduced to salutaridinol by salutaridine reductase (SalR; EC 1.1.1.248) using NADPH as coenzyme ...

    The opium poppy (Papaver somniferum L.) is one of the oldest known medicinal plants. In the biosynthetic pathway for morphine and codeine, salutaridine is reduced to salutaridinol by salutaridine reductase (SalR; EC 1.1.1.248) using NADPH as coenzyme. Here, we report the atomic structure of SalR to a resolution of ∼1.9 Å in the presence of NADPH. The core structure is highly homologous to other members of the short chain dehydrogenase/reductase family. The major difference is that the nicotinamide moiety and the substrate-binding pocket are covered by a loop (residues 265-279), on top of which lies a large "flap"-like domain (residues 105-140). This configuration appears to be a combination of the two common structural themes found in other members of the short chain dehydrogenase/reductase family. Previous modeling studies suggested that substrate inhibition is due to mutually exclusive productive and nonproductive modes of substrate binding in the active site. This model was tested via site-directed mutagenesis, and a number of these mutations abrogated substrate inhibition. However, the atomic structure of SalR shows that these mutated residues are instead distributed over a wide area of the enzyme, and many are not in the active site. To explain how residues distal to the active site might affect catalysis, a model is presented whereby SalR may undergo significant conformational changes during catalytic turnover.


    Organizational Affiliation

    Donald Danforth Plant Science Center, St. Louis, Missouri 63132, USA.




Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Salutaridine reductase
A
311Papaver somniferumMutation(s): 0 
Gene Names: SALR
EC: 1.1.1.248
Find proteins for Q071N0 (Papaver somniferum)
Go to UniProtKB:  Q071N0
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NDP
Query on NDP

Download SDF File 
Download CCD File 
A
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
C21 H30 N7 O17 P3
ACFIXJIJDZMPPO-NNYOXOHSSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.193 
  • Space Group: P 64 2 2
Unit Cell:
Length (Å)Angle (°)
a = 139.906α = 90.00
b = 139.906β = 90.00
c = 100.174γ = 120.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
SOLVEphasing
PHENIXrefinement
HKL-3000data collection
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-12-15
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance