3HJ6

Structure of Halothermothrix orenii fructokinase (FRK)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.254 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of a fructokinase homolog from Halothermothrix orenii

Chua, T.K.Seetharaman, J.Kasprzak, J.M.Ng, C.Patel, B.K.Love, C.Bujnicki, J.M.Sivaraman, J.

(2010) J.Struct.Biol. 171: 397-401

  • DOI: 10.1016/j.jsb.2010.05.007

  • PubMed Abstract: 
  • Fructokinase (FRK; EC 2.7.1.4) catalyzes the phosphorylation of d-fructose to d-fructose 6-phosphate (F6P). This irreversible and near rate-limiting step is a central and regulatory process in plants and bacteria, which channels fructose into a metab ...

    Fructokinase (FRK; EC 2.7.1.4) catalyzes the phosphorylation of d-fructose to d-fructose 6-phosphate (F6P). This irreversible and near rate-limiting step is a central and regulatory process in plants and bacteria, which channels fructose into a metabolically active state for glycolysis. Towards understanding the mechanism of FRK, here we report the crystal structure of a FRK homolog from a thermohalophilic bacterium Halothermothrixorenii (Hore_18220 in sequence databases). The structure of the Hore_18220 protein reveals a catalytic domain with a Rossmann-like fold and a beta-sheet "lid" for dimerization. Based on comparison of Hore_18220 to structures of related proteins, we propose its mechanism of action, in which the lid serves to regulate access to the substrate binding sites. Close relationship of Hore_18220 and plant FRK enzymes allows us to propose a model for the structure and function of FRKs.


    Organizational Affiliation

    Department of Biological Sciences, 14 Science Drive 4, National University of Singapore, Singapore 117543, Singapore.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Fructokinase
A, B
327Halothermothrix orenii (strain H 168 / OCM 544 / DSM 9562)Mutation(s): 0 
EC: 2.7.1.4
Find proteins for B8CZ52 (Halothermothrix orenii (strain H 168 / OCM 544 / DSM 9562))
Go to UniProtKB:  B8CZ52
Small Molecules
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: 2.8 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.254 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 43.446α = 90.00
b = 171.941β = 112.97
c = 46.598γ = 90.00
Software Package:
Software NamePurpose
CBASSdata collection
SOLVEphasing
PDB_EXTRACTdata extraction
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-06-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2014-02-12
    Type: Database references
  • Version 1.3: 2017-11-01
    Type: Refinement description