Enoyl-CoA hydratase (HyECH) from Hymenobacter sp. PAMC 26628

Experimental Data Snapshot

  • Resolution: 2.69 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.191 

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Structural and sequence comparisons of bacterial enoyl-CoA isomerase and enoyl-CoA hydratase.

Hwang, J.Jeong, C.S.Lee, C.W.Shin, S.C.Kim, H.W.Lee, S.G.Youn, U.J.Lee, C.S.Oh, T.J.Kim, H.J.Park, H.Park, H.H.Lee, J.H.

(2020) J Microbiol 58: 606-613

  • DOI: https://doi.org/10.1007/s12275-020-0089-1
  • Primary Citation of Related Structures:  
    6LVO, 6LVP

  • PubMed Abstract: 

    Crystal structures of enoyl-coenzyme A (CoA) isomerase from Bosea sp. PAMC 26642 (BoECI) and enoyl-CoA hydratase from Hymenobacter sp. PAMC 26628 (HyECH) were determined at 2.35 and 2.70 Å resolution, respectively. BoECI and HyECH are members of the crotonase superfamily and are enzymes known to be involved in fatty acid degradation. Structurally, these enzymes are highly similar except for the orientation of their C-terminal helix domain. Analytical ultracentrifugation was performed to determine the oligomerization states of BoECI and HyECH revealing they exist as trimers in solution. However, their putative ligand-binding sites and active site residue compositions are dissimilar. Comparative sequence and structural analysis revealed that the active site of BoECI had one glutamate residue (Glu135), this site is occupied by an aspartate in some ECIs, and the active sites of HyECH had two highly conserved glutamate residues (Glu118 and Glu138). Moreover, HyECH possesses a salt bridge interaction between Glu98 and Arg152 near the active site. This interaction may allow the catalytic Glu118 residue to have a specific conformation for the ECH enzyme reaction. This salt bridge interaction is highly conserved in known bacterial ECH structures and ECI enzymes do not have this type of interaction. Collectively, our comparative sequential and structural studies have provided useful information to distinguish and classify two similar bacterial crotonase superfamily enzymes.

  • Organizational Affiliation

    Unit of Research for Practical Application, Korea Polar Research Institute, Incheon, 21990, Republic of Korea.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Enoyl-CoA hydratase
A, B, C
263Hymenobacter sp. PAMC 26628Mutation(s): 0 
Gene Names: AXW84_18965
Find proteins for A0A126PEF4 (Hymenobacter sp. PAMC 26628)
Explore A0A126PEF4 
Go to UniProtKB:  A0A126PEF4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A126PEF4
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.69 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.191 
  • Space Group: P 42 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 128.306α = 90
b = 128.306β = 90
c = 102.975γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-29
    Type: Initial release
  • Version 1.1: 2020-11-11
    Changes: Database references
  • Version 1.2: 2023-11-29
    Changes: Data collection, Database references, Refinement description