5ZXN

Crystal structure of CurA from Vibrio vulnificus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.855 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.209 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural and Biochemical Characterization of the Curcumin-Reducing Activity of CurA from Vibrio vulnificus.

Park, S.B.Bae, D.W.Clavio, N.A.B.Zhao, L.Jeong, C.S.Choi, B.M.Macalino, S.J.Y.Cha, H.J.Park, J.B.Lee, J.H.Nam, S.J.Choi, S.Kim, M.K.Cha, S.S.

(2018) J. Agric. Food Chem. 66: 10608-10616

  • DOI: 10.1021/acs.jafc.8b03647
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Curcumin is a yellow-colored ingredient in dietary spice turmeric ( Curcuma longa Linn). This nontoxic polyphenol has antitumor, anti-inflammatory, apoptotic, and antioxidant activities. The ingested curcumin is reduced to multihydrated forms with mo ...

    Curcumin is a yellow-colored ingredient in dietary spice turmeric ( Curcuma longa Linn). This nontoxic polyphenol has antitumor, anti-inflammatory, apoptotic, and antioxidant activities. The ingested curcumin is reduced to multihydrated forms with more potent therapeutic potentials by the curcumin reductase (CurA) from commensal Escherichia coli. In this study, we demonstrated that Vibrio vulnificus CurA ( VvCurA) with 87% sequence similarity to the E. coli CurA exhibits the curcumin-reducing activity through spectrophotometric detection of NADPH oxidation and high performance liquid chromatographic analysis of curcumin consumption and product generation. Afterward, we determined the crystal structures of VvCurA and the VvCurA/NADPH complex, and made the in silico model of the VvCurA/NADPH/curcumin ternary complex through induced fit docking. Based on structural information, active site residues that play critical roles in catalysis have been identified and characterized by mutational and kinetic studies, leading us to propose the reaction mechanism of CurA.


    Organizational Affiliation

    Department of Chemistry & Nanoscience , Ewha Womans University , Seoul 03760 , Republic of Korea.,University of Science and Technology , Daejeon , Republic of Korea.,Unit of Polar Genomics , Korea Polar Research Institute , Incheon 21990 , Republic of Korea.,College of Pharmacy and Graduate School of Pharmaceutical Sciences , Ewha Womans University , Seoul 03760 , Republic of Korea.,Department of Food Science and Engineering , Ewha Womans University , Seoul 03760 , Republic of Korea.,Biotechnology Research Division , Korea Atomic Energy Research Institute (KAERI) , Jeongeup 56212 , Republic of Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NADP-dependent oxidoreductase
A, B
340Vibrio vulnificus (strain MO6-24/O)Mutation(s): 0 
Find proteins for A0A4V8GZL3 (Vibrio vulnificus (strain MO6-24/O))
Go to UniProtKB:  A0A4V8GZL3
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
MES
Query on MES

Download SDF File 
Download CCD File 
A, B
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.855 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.209 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 90.516α = 90.00
b = 91.555β = 90.00
c = 104.792γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
PHENIXphasing
PDB_EXTRACTdata extraction
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-04-03
    Type: Initial release