Biological Assembly 1  

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Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 72256.35 
• Atom Count: 5018 
• Residue Count: 640 
• Unique protein chains: 1

1PFK

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

• DOI: 10.2210/pdb1PFK/pdb

• Classification: TRANSFERASE(PHOSPHOTRANSFERASE)
• Organism(s): Escherichia coli (strain K12)


• Deposited: 1988-01-25 Released: 1989-01-09 
• Deposition Author(s): Shirakihara, Y., Evans, P.R.

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Experimental Data Snapshot

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

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: 2975709 


• 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 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.

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Related Citations: 

• Phosphofructokinase. Structure and Control
  Evans, P.R.,Farrants, G.W.,Hudson, P.J.
  (1981) Philos.Trans.R.Soc.London,Ser.B 293: 53
• 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
• Crystal Structure of Unliganded Phosphofructokinase from Escherichia Coli
  Rypniewski, W.R.,Evans, P.R.
  (1989) J.Mol.Biol. 207: 805
• The Three-Dimensional Structure of Phosphofructokinase from Bacillus Stearothermophilus
  Evans, P.R.,Hudson, P.J.
  (1978) Proc.FEBS Meet. 52: 349
• 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




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Organizational Affiliation: 

Laboratory of Molecular Biology, Cambridge, England.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PHOSPHOFRUCTOKINASE	A, B	320	Escherichia coli (strain K12)	Mutation(s): 0  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
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ADP	A, B	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	A, B	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
FBP	A, B	BETA-FRUCTOSE-1,6-DIPHOSPHATE FRUCTOSE-1,6-BISPHOSPHATE C6 H14 O12 P2 RNBGYGVWRKECFJ-ARQDHWQXSA-N

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 = 112.300	α = 90.00
b = 85.400	β = 90.00
c = 77.100	γ = 90.00

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1988-01-25 
• Released Date: 1989-01-09 
• Deposition Author(s): Shirakihara, Y., Evans, P.R.

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