P77172 · PDEF_ECOLI

Function

function

Phosphodiesterase (PDE) that catalyzes the hydrolysis of cyclic-di-GMP (c-di-GMP) to 5'-pGpG. Truncated proteins consisting of the GGDEF/EAL domains (residues 319-747) or of the EAL domain alone (481-747) have c-di-GMP phosphodiesterase activity. They do not have diguanylate cyclase activity. Cyclic-di-GMP is a second messenger which controls cell surface-associated traits in bacteria.

Catalytic activity

Cofactor

Mg2+ (UniProtKB | Rhea| CHEBI:18420 )

Mn2+ (UniProtKB | Rhea| CHEBI:29035 )

Note: Mg2+, and possibly also Mn2+.

Activity regulation

Inhibited by pGpG.

pH Dependence

Optimum pH is 7.5 for the truncated enzyme.

GO annotations

AspectTerm
Cellular Componentmembrane
Cellular Componentplasma membrane
Molecular Functioncyclic-guanylate-specific phosphodiesterase activity
Molecular Functionnucleotide binding
Molecular Functionprotein homodimerization activity
Biological Processcellular response to anoxia
Biological Processcellular response to hydrogen peroxide
Biological Processregulation of single-species biofilm formation

Keywords

Enzyme and pathway databases

Names & Taxonomy

Protein names

  • Recommended name
    Cyclic di-GMP phosphodiesterase PdeF
  • EC number

Gene names

    • Name
      pdeF
    • Synonyms
      yfgF
    • Ordered locus names
      b2503, JW2488

Organism names

  • Taxonomic identifier
  • Strains
    • K12 / W3110 / ATCC 27325 / DSM 5911
    • K12 / MG1655 / ATCC 47076
  • Taxonomic lineage
    Bacteria > Pseudomonadota > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Escherichia

Accessions

  • Primary accession
    P77172

Proteomes

Subcellular Location

Cell inner membrane
; Multi-pass membrane protein

Features

Showing features for topological domain, transmembrane.

TypeIDPosition(s)Description
Topological domain1-14Periplasmic
Transmembrane15-36Helical
Topological domain37-42Cytoplasmic
Transmembrane43-65Helical
Topological domain66-79Periplasmic
Transmembrane80-102Helical
Topological domain103-128Cytoplasmic
Transmembrane129-151Helical
Topological domain152-165Periplasmic
Transmembrane166-188Helical
Topological domain189-215Cytoplasmic
Transmembrane216-235Helical
Topological domain236-239Periplasmic
Transmembrane240-259Helical
Topological domain260-265Cytoplasmic
Transmembrane266-285Helical
Topological domain286-294Periplasmic
Transmembrane295-317Helical
Topological domain318-747Cytoplasmic

Keywords

Phenotypes & Variants

Disruption phenotype

Increased biofilm formation but a decreased tendency to sediment and aggregate. Cells are more sensitive to peroxide.

PTM/Processing

Features

Showing features for chain.

TypeIDPosition(s)Description
ChainPRO_00001692411-747Cyclic di-GMP phosphodiesterase PdeF

Proteomic databases

Expression

Induction

Induced by FNR. Expression is highest under anaerobic conditions at 28 degrees Celsius in stationary phase.

Interaction

Protein-protein interaction databases

Structure

Family & Domains

Features

Showing features for domain.

TypeIDPosition(s)Description
Domain493-744EAL

Keywords

Phylogenomic databases

Family and domain databases

Sequence

  • Sequence status
    Complete
  • Length
    747
  • Mass (Da)
    85,608
  • Last updated
    1997-02-01 v1
  • Checksum
    7D5E8B0E646C8EDF
MKLNATYIKIRDKWWGLPLFLPSLILPIFAHINTFAHISSGEVFLFYLPLALMISMMMFFSWAALPGIALGIFVRKYAELGFYETLSLTANFIIIIILCWGGYRVFTPRRNNVSHGDTRLISQRIFWQIVFPATLFLILFQFAAFVGLLASRENLVGVMPFNLGTLINYQALLVGNLIGVPLCYFIIRVVRNPFYLRSYYSQLKQQVDAKVTKKEFALWLLALGALLLLLCMPLNEKSTIFSTNYTLSLLLPLMMWGAMRYGYKLISLLWAVVLMISIHSYQNYIPIYPGYTTQLTITSSSYLVFSFIVNYMAVLATRQRAVVRRIQRLAYVDPVVHLPNVRALNRALRDAPWSALCYLRIPGMEMLVKNYGIMLRIQYKQKLSHWLSPLLEPGEDVYQLSGNDLALRLNTESHQERITALDSHLKQFRFFWDGMPMQPQIGVSYCYVRSPVNHIYLLLGELNTVAELSIVTNAPENMQRRGAMYLQRELKDKVAMMNRLQQALEHNHFFLMAQPITGMRGDVYHEILLRMKGENDELISPDSFLPVAHEFGLSSSIDMWVIEHTLQFMAENRAKMPAHRFAINLSPTSVCQARFPVEVSQLLAKYQIEAWQLIFEVTESNALTNVKQAQITLQHLQELGCQIAIDDFGTGYASYARLKNVNADLLKIDGSFIRNIVSNSLDYQIVASICHLARMKKMLVVAEYVENEEIREAVLSLGIDYMQGYLIGKPQPLIDTLNEIEPIRESA

Keywords

Sequence databases

Nucleotide SequenceProtein SequenceMolecule TypeStatus
U00096
EMBL· GenBank· DDBJ
AAC75556.1
EMBL· GenBank· DDBJ
Genomic DNA
AP009048
EMBL· GenBank· DDBJ
BAA16393.1
EMBL· GenBank· DDBJ
Genomic DNA

Genome annotation databases

Similar Proteins

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