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184  structures 7010  species 0  interactions 21644  sequences 84  architectures

Family: PFK (PF00365)

Summary: Phosphofructokinase

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This is the Wikipedia entry entitled "Phosphofructokinase". More...

Phosphofructokinase Edit Wikipedia article

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This is the Wikipedia entry entitled "Phosphofructokinase 1". More...

Phosphofructokinase 1 Edit Wikipedia article

Phosphofructokinase 6PFK wpmp.png
EC number2.7.1.11
CAS number9001-80-3
IntEnzIntEnz view
ExPASyNiceZyme view
MetaCycmetabolic pathway
PDB structuresRCSB PDB PDBe PDBsum
Gene OntologyAmiGO / QuickGO
Pfam clanCL0240

Phosphofructokinase-1 (PFK-1) is one of the most important regulatory enzymes (EC of glycolysis. It is an allosteric enzyme made of 4 subunits and controlled by many activators and inhibitors. PFK-1 catalyzes the important "committed" step of glycolysis, the conversion of fructose 6-phosphate and ATP to fructose 1,6-bisphosphate and ADP. Glycolysis is the foundation for respiration, both anaerobic and aerobic. Because phosphofructokinase (PFK) catalyzes the ATP-dependent phosphorylation to convert fructose-6-phosphate into fructose 1,6-bisphosphate and ADP, it is one of the key regulatory and rate limiting steps of glycolysis. PFK is able to regulate glycolysis through allosteric inhibition, and in this way, the cell can increase or decrease the rate of glycolysis in response to the cell's energy requirements. For example, a high ratio of ATP to ADP will inhibit PFK and glycolysis. The key difference between the regulation of PFK in eukaryotes and prokaryotes is that in eukaryotes PFK is activated by fructose 2,6-bisphosphate. The purpose of fructose 2,6-bisphosphate is to supersede ATP inhibition, thus allowing eukaryotes to have greater sensitivity to regulation by hormones like glucagon and insulin.[1]

β-D-fructose 6-phosphate Phosphofructokinase 1 β-D-fructose 1,6-bisphosphate
Beta-D-fructose-6-phosphate wpmp.png   Beta-D-fructose-1,6-bisphosphate wpmp.png
Biochem reaction arrow reversible YYYY horiz med.svg
Pi H2O
  Fructose bisphosphatase


Mammalian PFK1 is a 340kd[2] tetramer composed of different combinations of three types of subunits: muscle (M), liver (L), and platelet (P). The composition of the PFK1 tetramer differs according to the tissue type it is present in. For example, mature muscle expresses only the M isozyme, therefore, the muscle PFK1 is composed solely of homotetramers of M4. The liver and kidneys express predominantly the L isoform. In erythrocytes, both M and L subunits randomly tetramerize to form M4, L4 and the three hybrid forms of the enzyme (ML3, M2L2, M3L). As a result, the kinetic and regulatory properties of the various isoenzymes pools are dependent on subunit composition. Tissue-specific changes in PFK activity and isoenzymic content contribute significantly to the diversities of glycolytic and gluconeogenic rates which have been observed for different tissues.[3]

PFK1 is an allosteric enzyme and has a structure similar to that of hemoglobin in so far as it is a dimer of a dimer.[4] One half of each dimer contains the ATP binding site whereas the other half the substrate (fructose-6-phosphate or (F6P)) binding site as well as a separate allosteric binding site.[5]

Each subunit of the tetramer is 319 amino acids and consists of two domains: one that binds the substrate ATP, and the other that binds fructose-6-phosphate. Each domain is a b barrel, and has cylindrical b sheet surrounded by alpha helices.

On the opposite side of the each subunit from each active site is the allosteric site, at the interface between subunits in the dimer. ATP and AMP compete for this site. The N-terminal domain has a catalytic role binding the ATP, and the C-terminal has a regulatory role [6]


PFK1 is an allosteric enzyme whose activity can be described using the symmetry model of allosterism[7] whereby there is a concerted transition from an enzymatically inactive T-state to the active R-state. F6P binds with a high affinity to the R state but not the T state enzyme. For every molecule of F6P that binds to PFK1, the enzyme progressively shifts from T state to the R state. Thus a graph plotting PFK1 activity against increasing F6P concentrations would adopt the sigmoidal curve shape traditionally associated with allosteric enzymes.

PFK1 belongs to the family of phosphotransferases and it catalyzes the transfer of γ-phosphate from ATP to fructose-6-phosphate. The PFK1 active site comprises both the ATP-Mg2+ and the F6P binding sites. Some proposed residues involved with substrate binding in E. coli PFK1 include Asp127 and Arg171.[8] In B. stearothermophilus PFK1, the positively charged side chain of Arg162 residue forms a hydrogen-bonded salt bridge with the negatively charged phosphate group of F6P, an interaction which stabilizes the R state relative to the T state and is partly responsible for the homotropic effect of F6P binding. In the T state, enzyme conformation shifts slightly such that the space previously taken up by the Arg162 is replaced with Glu161. This swap in positions between adjacent amino acid residues inhibits the ability of F6P to bind the enzyme.

Allosteric activators such as AMP and ADP bind to the allosteric site as to facilitate the formation of the R state by inducing structural changes in the enzyme. Similarly, inhibitors such as ATP and PEP bind to the same allosteric site and facilitate the formation of the T state, thereby inhibiting enzyme activity.

The hydroxyl oxygen of carbon 1 does a nucleophilic attack on the beta phosphate of ATP. These electrons are pushed to the anhydride oxygen between the beta and gamma phosphates of ATP.[9][10]

Mechanism of phosphofructokinase 1


PFK1 is the most important control site in the mammalian glycolytic pathway. This step is subject to extensive regulation since it is not only highly exergonic under physiological conditions, but also because it is a committed step – the first irreversible reaction unique to the glycolytic pathway. This leads to a precise control of glucose and the other monosaccharides galactose and fructose going down the glycolytic pathway. Before this enzyme's reaction, glucose-6-phosphate can potentially travel down the pentose phosphate pathway, or be converted to glucose-1-phosphate for glycogenesis.

PFK1 is allosterically inhibited by high levels of ATP but AMP reverses the inhibitory action of ATP. Therefore, the activity of the enzyme increases when the cellular ATP/AMP ratio is lowered. Glycolysis is thus stimulated when energy charge falls. PFK1 has two sites with different affinities for ATP which is both a substrate and an inhibitor.[2]

PFK1 is also inhibited by low pH levels which augment the inhibitory effect of ATP. The pH falls when muscle is functioning anaerobically and producing excessive quantities of lactic acid (although lactic acid is not itself the cause of the decrease in pH[11]). This inhibitory effect serves to protect the muscle from damage that would result from the accumulation of too much acid.[2]

Finally, PFK1 is allosterically inhibited by PEP, citrate, and ATP. Phosphoenolpyruvic acid is a product further downstream the glycolytic pathway. Although citrate does build up when the Krebs Cycle enzymes approach their maximum velocity, it is questionable whether citrate accumulates to a sufficient concentration to inhibit PFK-1 under normal physiological conditions[citation needed]. ATP concentration build up indicates an excess of energy and does have an allosteric modulation site on PFK1 where it decreases the affinity of PFK1 for its substrate.

PFK1 is allosterically activated by a high concentration of AMP, but the most potent activator is fructose 2,6-bisphosphate, which is also produced from fructose-6-phosphate by PFK2. Hence, an abundance of F6P results in a higher concentration of fructose 2,6-bisphosphate (F-2,6-BP). The binding of F-2,6-BP increases the affinity of PFK1 for F6P and diminishes the inhibitory effect of ATP. This is an example of feedforward stimulation as glycolysis is accelerated when glucose is abundant.[2]

PFK activity is reduced through repression of synthesis by glucagon. Glucagon activates protein kinase A which, in turn, shuts off the kinase activity of PFK2. This reverses any synthesis of F-2,6-BP from F6P and thus de-activates PFK1.

The precise regulation of PFK1 prevents glycolysis and gluconeogenesis from occurring simultaneously. However, there is substrate cycling between F6P and F-1,6-BP. Fructose-1,6-bisphosphatase (FBPase) catalyzes the hydrolysis of F-1,6-BP back to F6P, the reverse reaction catalyzed by PFK1. There is a small amount of FBPase activity during glycolysis and some PFK1 activity during gluconeogenesis. This cycle allows for the amplification of metabolic signals as well as the generation of heat by ATP hydrolysis.

Serotonin (5-HT) increases PFK by binding to the 5-HT(2A) receptor, causing the tyrosine residue of PFK to be phosphorylated via phospholipase C. This in turn redistributes PFK within the skeletal muscle cells. Because PFK regulates glycolytic flux, serotonin plays a regulatory role in glycolysis [12]


There are three phosphofructokinase genes in humans:

Clinical significance

A genetic mutation in the PFKM gene results in Tarui's disease, which is a glycogen storage disease where the ability of certain cell types to utilize carbohydrates as a source of energy is impaired.[13]

Tarui disease is a glycogen storage disease with symptoms including muscle weakness (myopathy) and exercise induced cramping and spasms, myoglobinuria (presence of myoglobin in urine, indicating muscle destruction) and compensated hemolysis. ATP is a natural allosteric inhibitor of PFK, in order to prevent unnecessary production of ATP through glycolysis. However, a mutation in Asp(543)Ala can result in ATP having a stronger inhibitory effect (due to increased binding to PFK’s inhibitory allosteric binding site).[14][15]

Phosphofructokinase mutation and cancer: In order for cancer cells to meet their energy requirements due to their rapid cell growth and division, they survive more effectively when they have a hyperactive phosphofructokinase 1 enzyme. When cancer cells grow and divide quickly, they initially do not have as much blood supply, and can thus have hypoxia (oxygen deprivation), and this triggers O-GlcNAcylation at serine 529 of PFK, giving a selective growth advantage to cancer cells.[16][17][18]

Herpes simplex type 1 and phosphofructokinase: Some viruses, including HIV, HCMV and Mayaro affect cellular metabolic pathways such as glycolysis by a MOI-dependent increase in the activity of PFK. The mechanism that Herpes increases PFK activity is by phosphorylating the enzyme at the serine residues. The HSV-1 induced glycolysis increases ATP content, which is critical for the virus’s replication.[19]

See also

  • PFK2 (converts fructose 6-phosphate to fructose 2,6-bisphosphate through on site, or the opposite, on another site)
  • PFP (reversibly interconverts fructose 6-phosphate and fructose 1,6-bisphosphate using inorganic pyrophosphate rather than ATP)
  • Fructose bisphosphatase (hydrolyses fructose 1,6-bisphosphate to fructose 6-phosphate)


  1. ^ Usenik A, LegiÅ¡a M (Nov 2010). Kobe B (ed.). "Evolution of allosteric citrate binding sites on 6-phosphofructo-1-kinase". PLOS ONE. 5 (11): 677–683. doi:10.1371/journal.pone.0015447. PMC 2990764. PMID 21124851.
  2. ^ a b c d Stryer L, Berg JM, Tymoczko JL (2007). Biochemistry (Sixth ed.). San Francisco: W.H. Freeman. ISBN 978-0-7167-8724-2.
  3. ^ Dunaway GA, Kasten TP, Sebo T, Trapp R (May 1988). "Analysis of the phosphofructokinase subunits and isoenzymes in human tissues". Biochem. J. 251 (3): 677–83. doi:10.1042/bj2510677. PMC 1149058. PMID 2970843.
  4. ^ PDB: 4pfk​; Evans PR, Farrants GW, Hudson PJ (June 1981). "Phosphofructokinase: structure and control". Philosophical Transactions of the Royal Society B. 293 (1063): 53–62. doi:10.1098/rstb.1981.0059. PMID 6115424. Lay summary – PDB Molecule of the Month.
  5. ^ Shirakihara Y, Evans PR (December 1988). "Crystal structure of the complex of phosphofructokinase from Escherichia coli with its reaction products". J. Mol. Biol. 204 (4): 973–94. doi:10.1016/0022-2836(88)90056-3. PMID 2975709.
  6. ^ Banaszak K, Mechin I, Obmolova G, Oldham M, Chang SH, Ruiz T, Radermacher M, Kopperschläger G, Rypniewski W (March 2011). "The crystal structures of eukaryotic phosphofructokinases from baker's yeast and rabbit skeletal muscle". J Mol Biol. 407 (7): 284–97. doi:10.1016/j.jmb.2011.01.019. PMID 21241708.
  7. ^ Peskov K, Goryanin I, Demin O (August 2008). "Kinetic model of phosphofructokinase-1 from Escherichia coli". J Bioinform Comput Biol. 6 (4): 843–67. doi:10.1142/S0219720008003643. PMID 18763746.
  8. ^ Hellinga HW, Evans PR (1987). "Mutations in the active site of Escherichia coli phosphofructokinase". Nature. 327 (6121): 437–9. doi:10.1038/327437a0. PMID 2953977.
  9. ^ Phong WY, Lin W, Rao SP, Dick T, Alonso S, Pethe K (Aug 2013). Parish T (ed.). "Characterization of Phosphofructokinase Activity in Mycobacterium tuberculosis Reveals That a Functional Glycolytic Carbon Flow Is Necessary to Limit the Accumulation of Toxic Metabolic Intermediates under Hypoxia". PLOS ONE. 8 (2): 1198–206. doi:10.1371/journal.pone.0056037. PMC 3567006. PMID 23409118.
  10. ^ Papagianni M, Avramidis N (May 2012). "Engineering the central pathways in Lactococcus lactis: functional expression of the phosphofructokinase (pfk) and alternative oxidase (aox1) genes from Aspergillus niger in Lactococcus lactis facilitates improved carbon conversion rates under oxidizing conditions". Enzyme and Microbial Technology. 51 (113): 125–30. doi:10.1016/j.enzmictec.2012.04.007. PMID 22759530.
  11. ^ Lindinger, Michael I.; Kowalchuk, John M.; Heigenhauser, George J. F. (2005-09-01). "Applying physicochemical principles to skeletal muscle acid-base status". American Journal of Physiology. Regulatory, Integrative and Comparative Physiology. 289 (3): R891–R894. doi:10.1152/ajpregu.00225.2005. ISSN 0363-6119. PMID 16105823.
  12. ^ Coelho WS, Sola-Penna M (Jan 2013). "Serotonin regulates 6-phosphofructo-1-kinase activity in a PLC-PKC-CaMK II- and Janus kinase-dependent signaling pathway". Mol. Cell. Biochem. 372 (1–2): 211–20. doi:10.1007/s11010-012-1462-0. PMID 23010892.
  13. ^ Nakajima H, Raben N, Hamaguchi T, Yamasaki T (March 2002). "Phosphofructokinase deficiency; past, present and future". Curr. Mol. Med. 2 (2): 197–212. doi:10.2174/1566524024605734. PMID 11949936.
  14. ^ Bruser A, KirchbergerJ, Schoneberg T (Oct 2012). "Altered allosteric regulation of muscle 6-phosphofructokinase causes Tarui disease". Biochem Biophys Res Commun. 427 (1): 133–7. doi:10.1016/j.bbrc.2012.09.024. PMID 22995305.
  15. ^ Brüser A, Kirchberger J, Schöneberg T (October 2012). "Altered allosteric regulation of muscle 6-phosphofructokinase causes Tarui disease". Biochem. Biophys. Res. Commun. 427 (1): 133–7. doi:10.1016/j.bbrc.2012.09.024. PMID 22995305.
  16. ^ Yi W, Clark PM, Mason DE, Keenan MC, Hill C, Goddard WA, Peters EC, Driggers EM, Hsieh-Wilson LC (Aug 2012). "Phosphofructokinase 1 glycosylation regulates cell growth and metabolism". Science. 337 (6097): 975–80. doi:10.1126/science.1222278. PMC 3534962. PMID 22923583.
  17. ^ Gomez LS, Zancan P, Marcondes MC, Ramos-Santos L, Meyer-Fernandes JR, Sola-Penna M, Da Silva D (Feb 2013). "Resveratrol decreases breast cancer cell viability and glucose metabolism by inhibiting 6-phosphofructo-1-kinase". Biochimie. 95 (6): 1336–43. doi:10.1016/j.biochi.2013.02.013. PMID 23454376.
  18. ^ Vaz CV, Alves MG, Marques R, Moreira PI, Oliveira PF, Maia CJ, Socorro S (Feb 2013). "Androgen-responsive and nonresponsive prostate cancer cells present a distinct glycolytic metabolism profile". Int J Biochem Cell Biol. 44 (11): 2077–84. doi:10.1016/j.biocel.2012.08.013. PMID 22964025.
  19. ^ Abrantes JL, Alves CM, Costa J, Almeida FC, Sola-Penna M, Fontes CF, Souza TM (Aug 2012). "Herpes simplex type 1 activates glycolysis through engagement of the enzyme 6-phosphofructo-1-kinase (PFK-1)". Biochim Biophys Acta. 1822 (8): 1198–206. doi:10.1016/j.bbadis.2012.04.011. PMID 22542512.

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This tab holds annotation information from the InterPro database.

InterPro entry IPR000023

The enzyme-catalysed transfer of a phosphoryl group from ATP is an important reaction in a wide variety of biological processes [ PUBMED:2953977 ]. One enzyme that utilises this reaction is phosphofructokinase (PFK), which catalyses the phosphorylation of fructose-6-phosphate to fructose-1,6- bisphosphate, a key regulatory step in the glycolytic pathway [ PUBMED:12023862 , PUBMED:7825568 ]. PFK exists as a homotetramer in bacteria and mammals (where each monomer possesses 2 similar domains), and as an octomer in yeast (where there are 4 alpha- (PFK1) and 4 beta-chains (PFK2), the latter, like the mammalian monomers, possessing 2 similar domains [ PUBMED:7825568 ]).

PFK is ~300 amino acids in length, and structural studies of the bacterial enzyme have shown it comprises two similar (alpha/beta) lobes: one involved in ATP binding and the other housing both the substrate-binding site and the allosteric site (a regulatory binding site distinct from the active site, but that affects enzyme activity). The identical tetramer subunits adopt 2 different conformations: in a 'closed' state, the bound magnesium ion bridges the phosphoryl groups of the enzyme products (ADP and fructose-1,6- bisphosphate); and in an 'open' state, the magnesium ion binds only the ADP [ PUBMED:2975709 ], as the 2 products are now further apart. These conformations are thought to be successive stages of a reaction pathway that requires subunit closure to bring the 2 molecules sufficiently close to react [ PUBMED:2975709 ].

Deficiency in PFK leads to glycogenosis type VII (Tauri's disease), an autosomal recessive disorder characterised by severe nausea, vomiting, muscle cramps and myoglobinuria in response to bursts of intense or vigorous exercise [ PUBMED:7825568 ]. Sufferers are usually able to lead a reasonably ordinary life by learning to adjust activity levels [ PUBMED:7825568 ].

Gene Ontology

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Domain organisation

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Pfam Clan

This family is a member of clan PFK (CL0240), which has the following description:

This clan includes two SCOP superfamilies. Strong similarities between NAD kinases, DAG kinase, sphingosine kinase and PFK have previously been shown[1].

The clan contains the following 4 members:

DAGK_cat NAD_kinase PFK Pfk_N


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Curation and family details

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Seed source: Prosite
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD
Number in seed: 706
Number in full: 21644
Average length of the domain: 284.00 aa
Average identity of full alignment: 31 %
Average coverage of the sequence by the domain: 73.86 %

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HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 30.9 30.9
Trusted cut-off 31.0 30.9
Noise cut-off 30.7 30.7
Model length: 286
Family (HMM) version: 23
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Archea Archea Eukaryota Eukaryota
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Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence


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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the PFK domain has been found. There are 184 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A096S0J0 View 3D Structure Click here
A0A0N7KPX2 View 3D Structure Click here
A0A0P0WBF4 View 3D Structure Click here
A0A0P0XL64 View 3D Structure Click here
A0A0R0HFF3 View 3D Structure Click here
A0A0R0L0W7 View 3D Structure Click here
A0A0R4ID68 View 3D Structure Click here
A0A0R4ITA8 View 3D Structure Click here
A0A1D6EPV9 View 3D Structure Click here
A0A1D6I1J0 View 3D Structure Click here
A0A1D6I6P4 View 3D Structure Click here
A0A1D6LL73 View 3D Structure Click here
A0A1D6M1R0 View 3D Structure Click here
A0A1D6MAI0 View 3D Structure Click here
A0A1D6NDA8 View 3D Structure Click here
A0A1D6NR86 View 3D Structure Click here
A0A1D6NVB0 View 3D Structure Click here
A0A1D6NZU7 View 3D Structure Click here
A0A1D6Q8J0 View 3D Structure Click here
A0A2R8QDW4 View 3D Structure Click here
A0A2R8RZX5 View 3D Structure Click here
A4I4W5 View 3D Structure Click here
B4FAW1 View 3D Structure Click here
B7ZX15 View 3D Structure Click here
B7ZYR6 View 3D Structure Click here
C0HFI5 View 3D Structure Click here
C0P567 View 3D Structure Click here
C0PGA5 View 3D Structure Click here
C4J1M8 View 3D Structure Click here
E7F9M6 View 3D Structure Click here
E9QFJ1 View 3D Structure Click here
F4JGR5 View 3D Structure Click here
I1J4F8 View 3D Structure Click here
I1J525 View 3D Structure Click here
I1JUY7 View 3D Structure Click here
I1K9I0 View 3D Structure Click here
I1KGH5 View 3D Structure Click here
I1KJS2 View 3D Structure Click here
I1KKN7 View 3D Structure Click here
I1KNH4 View 3D Structure Click here