5YO8

Crystal structure of beta-C25/C30/C35-prene synthase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.205 

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This is version 1.2 of the entry. See complete history


Literature

Crystal structure and functional analysis of large-terpene synthases belonging to a newly found subclass.

Fujihashi, M.Sato, T.Tanaka, Y.Yamamoto, D.Nishi, T.Ueda, D.Murakami, M.Yasuno, Y.Sekihara, A.Fuku, K.Shinada, T.Miki, K.

(2018) Chem Sci 9: 3754-3758

  • DOI: 10.1039/c8sc00289d
  • Primary Citation of Related Structures:  
    5YO8

  • PubMed Abstract: 
  • Thousands of terpenes have been identified to date. However, only two classes of enzymes are known to be involved in their biosynthesis, and each class has characteristic amino-acid motifs. We recently identified a novel large-terpene (C 25 /C 30 /C 35 ) synthase, which shares no motifs with known enzymes ...

    Thousands of terpenes have been identified to date. However, only two classes of enzymes are known to be involved in their biosynthesis, and each class has characteristic amino-acid motifs. We recently identified a novel large-terpene (C 25 /C 30 /C 35 ) synthase, which shares no motifs with known enzymes. To elucidate the molecular mechanism of this enzyme, we determined the crystal structure of a large-β-prene synthase from B. alcalophilus (BalTS). Surprisingly, the overall structure of BalTS is similar to that of the α-domain of class I terpene synthases although their primary structures are totally different from each other. Two novel aspartate-rich motifs, DYLDNLxD and DY(F,L,W)IDxxED, are identified, and mutations of any one of the aspartates eliminate its enzymatic activity. The present work leads us to propose a new subclass of terpene synthases, class IB, which is probably responsible for large-terpene biosynthesis.


    Organizational Affiliation

    Department of Chemistry , Graduate School of Science , Kyoto University , Sakyo-ku , Kyoto 606-8502 , Japan . Email: mfuji@kuchem.kyoto-u.ac.jp ; Email: miki@kuchem.kyoto-u.ac.jp.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Tetraprenyl-beta-curcumene synthaseA, B354Alkalihalobacillus alcalophilus ATCC 27647 = CGMCC 1.3604Mutation(s): 0 
Gene Names: BALCAV_0202405AJ85_10400
UniProt
Find proteins for A0A094YZ24 (Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604)
Explore A0A094YZ24 
Go to UniProtKB:  A0A094YZ24
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.205 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.35α = 90
b = 151.67β = 110.03
c = 53.84γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan--

Revision History  (Full details and data files)

  • Version 1.0: 2018-05-09
    Type: Initial release
  • Version 1.1: 2018-05-16
    Changes: Data collection
  • Version 1.2: 2019-12-25
    Changes: Database references