Crystal structure for the mutant D81C of Sulfolobus solfataricus hexaprenyl pyrophosphate synthase

Experimental Data Snapshot

  • Resolution: 2.40 Å
  • R-Value Free: 0.347 
  • R-Value Work: 0.317 
  • R-Value Observed: 0.317 

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Homodimeric hexaprenyl pyrophosphate synthase from the thermoacidophilic crenarchaeon Sulfolobus solfataricus displays asymmetric subunit structures

Sun, H.Y.Ko, T.P.Kuo, C.J.Guo, R.T.Chou, C.C.Liang, P.H.Wang, A.H.J.

(2005) J Bacteriol 187: 8137-8148

  • DOI: https://doi.org/10.1128/JB.187.23.8137-8148.2005
  • Primary Citation of Related Structures:  
    2AZJ, 2AZK, 2AZL

  • PubMed Abstract: 

    Hexaprenyl pyrophosphate synthase (HexPPs) from Sulfolobus solfataricus catalyzes the synthesis of trans-C(30)-hexaprenyl pyrophosphate (HexPP) by reacting two isopentenyl pyrophosphate molecules with one geranylgeranyl pyrophosphate. The crystal structure of the homodimeric C(30)-HexPPs resembles those of other trans-prenyltransferases, including farnesyl pyrophosphate synthase (FPPs) and octaprenyl pyrophosphate synthase (OPPs). In both subunits, 10 core helices are arranged about a central active site cavity. Leu164 in the middle of the cavity controls the product chain length. Two protein conformers are observed in the S. solfataricus HexPPs structure, and the major difference between them occurs in the flexible region of residues 84 to 100. Several helices (alphaI, alphaJ, alphaK, and part of alphaH) and the associated loops have high-temperature factors in one monomer, which may be related to the domain motion that controls the entrance to the active site. Different side chain conformations of Trp136 in two HexPPs subunits result in weaker hydrophobic interactions at the dimer interface, in contrast to the symmetric pi-pi stacking interactions of aromatic side chains found in FPPs and OPPs. Finally, the three-conformer switched model may explain the catalytic process for HexPPs.

  • Organizational Affiliation

    Institute of Biochemical Sciences, National Taiwan University, Taipei.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Geranylgeranyl pyrophosphate synthetase
A, B
289Saccharolobus solfataricusMutation(s): 1 
Gene Names: gdS-2
Find proteins for Q97W92 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2))
Explore Q97W92 
Go to UniProtKB:  Q97W92
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ97W92
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.40 Å
  • R-Value Free: 0.347 
  • R-Value Work: 0.317 
  • R-Value Observed: 0.317 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.926α = 90
b = 91.926β = 90
c = 121.81γ = 120
Software Package:
Software NamePurpose
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-03-14
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2021-11-10
    Changes: Atomic model, Database references
  • Version 2.1: 2024-05-29
    Changes: Advisory, Data collection, Derived calculations