4QYJ

Structure of Phenylacetaldehyde Dehydrogenase from Pseudomonas putida S12


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.83 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.254 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure and biochemistry of phenylacetaldehyde dehydrogenase from the Pseudomonas putida S12 styrene catabolic pathway.

Crabo, A.G.Singh, B.Nguyen, T.Emami, S.Gassner, G.T.Sazinsky, M.H.

(2017) Arch.Biochem.Biophys. 616: 47-58

  • DOI: 10.1016/j.abb.2017.01.011

  • PubMed Abstract: 
  • Phenylacetaldehyde dehydrogenase catalyzes the NAD <sup>+ </sup>-dependent oxidation of phenylactealdehyde to phenylacetic acid in the styrene catabolic and detoxification pathway of Pseudomonas putida (S12). Here we report the structure and mechanis ...

    Phenylacetaldehyde dehydrogenase catalyzes the NAD + -dependent oxidation of phenylactealdehyde to phenylacetic acid in the styrene catabolic and detoxification pathway of Pseudomonas putida (S12). Here we report the structure and mechanistic properties of the N-terminally histidine-tagged enzyme, NPADH. The 2.83 Å X-ray crystal structure is similar in fold to sheep liver cytosolic aldehyde dehydrogenase (ALDH1), but has unique set of intersubunit interactions and active site tunnel for substrate entrance. In solution, NPADH occurs as 227 kDa homotetramer. It follows a sequential reaction mechanism in which NAD + serves as both the leading substrate and homotropic allosteric activator. In the absence of styrene monooxygenase reductase, which regenerates NAD + from NADH in the first step of styrene catabolism, NPADH is inhibited by a ternary complex involving NADH, product, and phenylacetaldehyde, substrate. Each oligomerization domain of NPADH contains a six-residue insertion that extends this loop over the substrate entrance tunnel of a neighboring subunit, thereby obstructing the active site of the adjacent subunit. This feature could be an important factor in the homotropic activation and product inhibition mechanisms. Compared to ALDH1, the substrate channel of NPADH is narrower and lined with more aromatic residues, suggesting a means for enhancing substrate specificity.


    Organizational Affiliation

    Department of Chemistry, Pomona College, Claremont, CA, United States.,Department of Chemistry and Biochemistry, San Francisco State University, San Francisco, CA, United States. Electronic address: gassner@sfsu.edu.,Department of Chemistry and Biochemistry, San Francisco State University, San Francisco, CA, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Aldehyde dehydrogenase
A, B, C, D, E, F, G, H
516Pseudomonas putida S12Mutation(s): 0 
Gene Names: styD
Find proteins for V4GH04 (Pseudomonas putida S12)
Go to UniProtKB:  V4GH04
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.83 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.254 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 112.090α = 90.00
b = 118.690β = 90.00
c = 304.740γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data reduction
REFMACrefinement
HKL-2000data scaling
Blu-Icedata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-08-19
    Type: Initial release
  • Version 1.1: 2017-02-22
    Type: Database references
  • Version 1.2: 2017-03-08
    Type: Database references