1IQ6

(R)-HYDRATASE FROM A. CAVIAE INVOLVED IN PHA BIOSYNTHESIS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of the (R)-specific enoyl-CoA hydratase from Aeromonas caviae involved in polyhydroxyalkanoate biosynthesis

Hisano, T.Tsuge, T.Fukui, T.Iwata, T.Miki, K.Doi, Y.

(2003) J.Biol.Chem. 278: 617-624

  • DOI: 10.1074/jbc.M205484200

  • PubMed Abstract: 
  • The (R)-specific enoyl coenzyme A hydratase ((R)-hydratase) from Aeromonas caviae catalyzes the addition of a water molecule to trans-2-enoyl coenzyme A (CoA), with a chain-length of 4-6 carbons, to produce the corresponding (R)-3-hydroxyacyl-CoA. It ...

    The (R)-specific enoyl coenzyme A hydratase ((R)-hydratase) from Aeromonas caviae catalyzes the addition of a water molecule to trans-2-enoyl coenzyme A (CoA), with a chain-length of 4-6 carbons, to produce the corresponding (R)-3-hydroxyacyl-CoA. It forms a dimer of identical subunits with a molecular weight of about 14,000 and is involved in polyhydroxyalkanoate (PHA) biosynthesis. The crystal structure of the enzyme has been determined at 1.5-A resolution. The structure of the monomer consists of a five-stranded antiparallel beta-sheet and a central alpha-helix, folded into a so-called "hot dog" fold, with an overhanging segment. This overhang contains the conserved residues including the hydratase 2 motif residues. In dimeric form, two beta-sheets are associated to form an extended 10-stranded beta-sheet, and the overhangs obscure the putative active sites at the subunit interface. The active site is located deep within the substrate-binding tunnel, where Asp(31) and His(36) form a catalytic dyad. These residues are catalytically important as confirmed by site-directed mutagenesis and are possibly responsible for the activation of a water molecule and the protonation of a substrate molecule, respectively. Residues such as Leu(65) and Val(130) are situated at the bottom of the substrate-binding tunnel, defining the preference of the enzyme for the chain length of the substrate. These results provide target residues for protein engineering, which will enhance the significance of this enzyme in the production of novel PHA polymers. In addition, this study provides the first structural information of the (R)-hydratase family and may facilitate further functional studies for members of the family.


    Related Citations: 
    • CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF (R)-SPECIFIC ENOYL-COA HYDRATASE FROM AEROMONAS CAVIAE INVOLVED IN POLYHYDROXYALKANOATE BIOSYNTHESIS
      Hisano, T.,Fukui, T.,Iwata, T.,Doi, Y.
      (2001) Acta Crystallogr.,Sect.D 57: 145
    • CLONING AND ANALYSIS OF THE POLY(3-HYDROXYBUTYRATE-CO-3-HYDROXYHEXANOATE) BIOSYNTHESIS GENES OF AEROMONAS CAVIAE
      Fukui, T.,Doi, Y.
      (1997) J.BACTERIOL. 179: 4821
    • EXPRESSION AND CHARACTERIZATION OF (R)-SPECIFIC ENOYL-COA HYDRATASE INVOLVED IN POLYHYDROXYALKANOATE BIOSYNTHESIS BY AEROMONAS CAVIAE
      Fukui, T.,SHIOMI, N.,Doi, Y.
      (1998) J.BACTERIOL. 180: 667


    Organizational Affiliation

    RIKEN Institute, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan. hisano@postman.riken.go.jp




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
(R)-SPECIFIC ENOYL-COA HYDRATASE
A, B
134Aeromonas caviaeGene Names: phaJ
EC: 4.2.1.119
Find proteins for O32472 (Aeromonas caviae)
Go to UniProtKB:  O32472
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IPA
Query on IPA

Download SDF File 
Download CCD File 
A
ISOPROPYL ALCOHOL
2-PROPANOL
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.203 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 110.030α = 90.00
b = 57.820β = 112.74
c = 46.970γ = 90.00
Software Package:
Software NamePurpose
PHASESphasing
CNSrefinement
MOSFLMdata reduction
CCP4data scaling
TRUNCATEdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-02-18
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance