4PFK

PHOSPHOFRUCTOKINASE. STRUCTURE AND CONTROL


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Observed: 0.169 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Phosphofructokinase: structure and control.

Evans, P.R.Farrants, G.W.Hudson, P.J.

(1981) Philos Trans R Soc London,ser B 293: 53-62

  • DOI: 10.1098/rstb.1981.0059
  • Primary Citation of Related Structures:  
    4PFK, 3PFK

  • PubMed Abstract: 
  • Phosphofructokinase from Bacillus stearothermophilus shows cooperative kinetics with respect to the substrate fructose-6-phosphate (F6P), allosteric activation by ADP, and inhibition by phosphoenolpyruvate. The crystal structure of the active conformation of the enzyme has been solved to 2 ...

    Phosphofructokinase from Bacillus stearothermophilus shows cooperative kinetics with respect to the substrate fructose-6-phosphate (F6P), allosteric activation by ADP, and inhibition by phosphoenolpyruvate. The crystal structure of the active conformation of the enzyme has been solved to 2.4 A resolution, and three ligand-binding sites have been located. Two of these form the active site and bind the substrates F6P and ATP. The third site binds both allosteric activator and inhibitor. The complex of the enzyme with F6P and ADP has been partly refined at 2.4 A resolution, and a model of ATP has been built into the active site by using the refined model of ADP and a 6 A resolution map of bound 5'-adenylylimidodiphosphate (AMPPNP). The gamma-phosphate of ATP is close to the 1-hydroxyl of F6P, in a suitable position for in-line phosphoryl transfer. The binding of the phosphate of F6P involves two arginines from a neighbouring subunit in the tetramer, which suggests that a rearrangement of the subunits could explain the cooperativity of substrate binding. The activatory ADP is also bound by residues from two subunits.


    Related Citations: 
    • Crystal Structure of Unliganded Phosphofructokinase from Escherichia Coli
      Rypniewski, W.R., Evans, P.R.
      (1989) J Mol Biol 207: 805
    • 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
    • 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
    • Nucleotide Sequence and High-Level Expression of the Major Escherichia Coli Phosphofructokinase
      Hellinga, H.W., Evans, P.R.
      (1985) Eur J Biochem 149: 363
    • 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

    Organizational Affiliation

    Regional Centre for Biotechnology, NCR Biotech Science Cluster, Faridabad-121 001, India.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHOSPHOFRUCTOKINASEA319Geobacillus stearothermophilusMutation(s): 0 
Gene Names: pfkApfk
EC: 2.7.1.11
UniProt
Find proteins for P00512 (Geobacillus stearothermophilus)
Explore P00512 
Go to UniProtKB:  P00512
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download Ideal Coordinates CCD File 
E [auth A], F [auth A]ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
F6P
Query on F6P

Download Ideal Coordinates CCD File 
B [auth A]6-O-phosphono-beta-D-fructofuranose
C6 H13 O9 P
BGWGXPAPYGQALX-ARQDHWQXSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
C [auth A], D [auth A]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Observed: 0.169 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 122.5α = 90
b = 84.1β = 90
c = 61.5γ = 90
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1989-01-09
    Type: Initial release
  • Version 1.1: 2008-03-25
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2011-11-16
    Changes: Atomic model
  • Version 1.4: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Database references, Derived calculations, Other, Structure summary