SUPERFAMILY 1.75 HMM library and genome assignments server

Phosphofructokinase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Phosphofructokinase [ 53783]
Superfamily:   Phosphofructokinase [ 53784]
Families:   Phosphofructokinase [ 53785] (2)


Superfamily statistics
Genomes (2,361) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,486 19,757 5
Proteins 4,676 18,632 5


Functional annotation
General category Metabolism
Detailed category Energy

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)single-organism metabolic process0.0000010770.0000000000003599Least InformativeDirect
Biological Process (BP)regulation of cellular process0.30471Least InformativeInherited
Biological Process (BP)single-organism cellular process0.0016780.0744Least InformativeInherited
Biological Process (BP)carbohydrate metabolic process00Moderately InformativeDirect
Biological Process (BP)phosphate-containing compound metabolic process00Moderately InformativeDirect
Biological Process (BP)monocarboxylic acid metabolic process00Moderately InformativeDirect
Biological Process (BP)single-organism catabolic process00Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process0.00000000067370Moderately InformativeDirect
Biological Process (BP)regulation of localization0.0033470.01422Moderately InformativeInherited
Biological Process (BP)carbohydrate catabolic process0.000000000000087460InformativeDirect
Biological Process (BP)phosphorylation00InformativeDirect
Biological Process (BP)cellular carbohydrate metabolic process00InformativeDirect
Biological Process (BP)regulation of secretion0.000048950.00001254InformativeDirect
Biological Process (BP)glycolytic process00Highly InformativeDirect
Biological Process (BP)carbohydrate phosphorylation00Highly InformativeDirect
Biological Process (BP)regulation of hormone secretion0.00000037280.000000009052Highly InformativeDirect
Biological Process (BP)regulation of peptide transport0.00000053150.00000001075Highly InformativeDirect
Molecular Function (MF)transferase activity00Least InformativeDirect
Molecular Function (MF)binding0.54560.8705Least InformativeInherited
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups00Moderately InformativeDirect
Molecular Function (MF)kinase activity00InformativeDirect
Molecular Function (MF)phosphotransferase activity, alcohol group as acceptor00InformativeDirect
Molecular Function (MF)carbohydrate kinase activity00Highly InformativeDirect
Cellular Component (CC)protein complex0.000040050.0000004852Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.0000000074250.0000000002059Least InformativeDirect
Cellular Component (CC)cytosol0.0000000000000014290Moderately InformativeDirect
Cellular Component (CC)transferase complex0.000000000048630Moderately InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism metabolic process 0.0000000000003599 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.828 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.0744 Least Informative Inherited
Biological Process (BP) carbohydrate metabolic process 0 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) monocarboxylic acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.01031 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.09822 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.01422 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.08739 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.01436 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.003379 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.1247 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.09982 Moderately Informative Inherited
Biological Process (BP) carbohydrate catabolic process 0 Informative Direct
Biological Process (BP) phosphorylation 0 Informative Direct
Biological Process (BP) hexose metabolic process 0.00000003855 Informative Direct
Biological Process (BP) cellular carbohydrate metabolic process 0 Informative Direct
Biological Process (BP) regulation of secretion 0.00001254 Informative Direct
Biological Process (BP) protein oligomerization 0.00001116 Informative Direct
Biological Process (BP) glucose metabolic process 0.000000009956 Highly Informative Direct
Biological Process (BP) glycolytic process 0 Highly Informative Direct
Biological Process (BP) response to carbohydrate 0.000000005256 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.0000003731 Highly Informative Direct
Biological Process (BP) carbohydrate phosphorylation 0 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 0.000000009052 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 0.00000001075 Highly Informative Direct
Molecular Function (MF) transferase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.8705 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.00000268 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.0000008431 Moderately Informative Direct
Molecular Function (MF) anion binding 0.0098 Moderately Informative Inherited
Molecular Function (MF) nucleotide binding 0.000000112 Informative Direct
Molecular Function (MF) kinase activity 0 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 0.000000003913 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.000000002375 Informative Direct
Molecular Function (MF) ATP binding 0.00000000006061 Highly Informative Direct
Molecular Function (MF) carbohydrate kinase activity 0 Highly Informative Direct
Cellular Component (CC) protein complex 0.0000004852 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0000000002059 Least Informative Direct
Cellular Component (CC) cytosol 0 Moderately Informative Direct
Cellular Component (CC) transferase complex 0 Moderately Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence meristem0Moderately InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processGlycolysis0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationKinase0Moderately InformativeDirect
Post-translational modificationAcetylation0.0002127Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)carbohydrate metabolism0Least InformativeDirect
UniPathway (UP)carbohydrate degradation0Moderately InformativeDirect
UniPathway (UP)glycolysis0InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR000023 SSF53784 Protein matches
Abstract The enzyme-catalysed transfer of a phosphoryl group from ATP is an important reaction in a wide variety of biological processes [PubMed2953977]. 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 [PubMed12023862, PubMed7825568]. 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 [PubMed7825568]).

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 [PubMed2975709], 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 [PubMed2975709].

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 [PubMed7825568]. Sufferers are usually able to lead a reasonably ordinary life by learning to adjust activity levels [PubMed7825568].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Phosphofructokinase domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the Phosphofructokinase superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]