1PFK

CRYSTAL STRUCTURE OF THE COMPLEX OF PHOSPHOFRUCTOKINASE FROM ESCHERICHIA COLI WITH ITS REACTION PRODUCTS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of the complex of phosphofructokinase from Escherichia coli with its reaction products.

Shirakihara, Y.Evans, P.R.

(1988) J.Mol.Biol. 204: 973-994


  • PubMed Abstract: 
  • The crystal structure of Escherichia coli phosphofructokinase complexed with its reaction products fructose 1,6-bisphosphate (Fru1,6P) and ADP/Mg2+, and the allosteric activator ADP/Mg2+, has been determined at 2.4 A resolution. The structure was sol ...

    The crystal structure of Escherichia coli phosphofructokinase complexed with its reaction products fructose 1,6-bisphosphate (Fru1,6P) and ADP/Mg2+, and the allosteric activator ADP/Mg2+, has been determined at 2.4 A resolution. The structure was solved by molecular replacement using the known structure of Bacillus stearothermophilus phosphofructokinase, and has been refined to a crystallographic R-factor of 0.165 for all data. The crystallization mixture contained the substrate fructose 6-phosphate, but the electron density maps showed clearly the presence of the product fructose 1,6-bisphosphate, presumably formed by the enzyme reaction with contaminating ATP. The crystal consists of tetrameric molecules with subunits in two different conformations despite their chemical identity. The magnesium ion in the "closed" subunit bridges the phosphate groups of the two products. In the "open" subunit, the products are about 1.5 A further apart, with the Mg2+ bound only to ADP. These two conformations probably represent two successive stages along the reaction pathway, in which the closure of the subunit is required to bring the substrates sufficiently close to react. This conformational change within the subunit is distinct from the quaternary structure change seen previously in the inactive T-state conformation. It is probably not involved in the co-operativity or allosteric control of the enzyme, since the co-operative product fructose 1,6-bisphosphate is not moved, nor are the subunit interfaces changed. The structure of the enzyme is similar to that of B. stearothermophilus phosphofructokinase, and confirms the location of the sites for the two reaction products (or substrates), and of the effector site binding the activator ADP/Mg2+. However, this structure gives a clearer picture of the active site, and of the interactions between the enzyme and its reaction products.


    Related Citations: 
    • Crystal Structure of Unliganded Phosphofructokinase from Escherichia Coli
      Rypniewski, W.R.,Evans, P.R.
      (1989) J.Mol.Biol. 207: 805
    • Structure and Control of Phosphofructokinase from Bacillus Stearothermophilus
      Evans, P.R.,Hudson, P.J.
      (1979) Nature 279: 500
    • The Three-Dimensional Structure of Phosphofructokinase from Bacillus Stearothermophilus
      Evans, P.R.,Hudson, P.J.
      (1978) Proc.FEBS Meet. 52: 349
    • Nucleotide Sequence and High-Level Expression of the Major Escherichia Coli Phosphofructokinase
      Hellinga, H.W.,Evans, P.R.
      (1985) Eur.J.Biochem. 149: 363
    • Crystallographic Structure of Allosterically Inhibited Phosphofructokinase at 7 Angstroms Resolution
      Evans, P.R.,Farrants, G.W.,Lawrence, M.C.
      (1986) J.Mol.Biol. 191: 713
    • Phosphofructokinase. Structure and Control
      Evans, P.R.,Farrants, G.W.,Hudson, P.J.
      (1981) Philos.Trans.R.Soc.London,Ser.B 293: 53


    Organizational Affiliation

    Laboratory of Molecular Biology, Cambridge, England.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PHOSPHOFRUCTOKINASE
A, B
320Escherichia coli (strain K12)Gene Names: pfkA
EC: 2.7.1.11
Find proteins for P0A796 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A796
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

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Download CCD File 
A, B
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

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Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
FBP
Query on FBP

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Download CCD File 
A, B
BETA-FRUCTOSE-1,6-DIPHOSPHATE
FRUCTOSE-1,6-BISPHOSPHATE
C6 H14 O12 P2
RNBGYGVWRKECFJ-ARQDHWQXSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 112.300α = 90.00
b = 85.400β = 90.00
c = 77.100γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1989-01-09
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance