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Protein

Phosphodiesterase YfcE

Gene

yfcE

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Shows phosphodiesterase activity, hydrolyzing phosphodiesters bonds in the artificial chromogenic substrates bis-p-nitrophenyl phosphate (bis-pNPP), and less efficiently thymidine 5'-monophosphate p-nitrophenyl ester (pNP-TMP) and p-nitrophenylphosphorylcholine (pNPPC). The physiological substrate is unknown.1 Publication

Cofactori

Mn2+1 PublicationNote: Binds 2 manganese ions per subunit.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi9Manganese 11
Metal bindingi11Manganese 11
Metal bindingi37Manganese 11
Metal bindingi37Manganese 21
Metal bindingi73Manganese 21
Metal bindingi105Manganese 21
Metal bindingi127Manganese 21
Metal bindingi129Manganese 11

GO - Molecular functioni

  • hydrolase activity Source: UniProtKB-KW
  • zinc ion binding Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Manganese, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:G7192-MONOMER.
ECOL316407:JW5377-MONOMER.
BRENDAi3.1.4.1. 2026.
3.1.4.16. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
Phosphodiesterase YfcE (EC:3.1.4.-)
Gene namesi
Name:yfcE
Ordered Locus Names:b2300, JW5377
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG14108. yfcE.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001556051 – 184Phosphodiesterase YfcEAdd BLAST184

Proteomic databases

PaxDbiP67095.
PRIDEiP67095.

Interactioni

Protein-protein interaction databases

BioGridi4260515. 360 interactors.
STRINGi511145.b2300.

Structurei

Secondary structure

1184
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 7Combined sources5
Helixi14 – 27Combined sources14
Beta strandi30 – 34Combined sources5
Helixi53 – 61Combined sources9
Helixi62 – 66Combined sources5
Beta strandi67 – 69Combined sources3
Helixi77 – 82Combined sources6
Beta strandi83 – 85Combined sources3
Beta strandi90 – 95Combined sources6
Beta strandi100 – 104Combined sources5
Beta strandi106 – 110Combined sources5
Beta strandi122 – 124Combined sources3
Beta strandi132 – 136Combined sources5
Beta strandi139 – 143Combined sources5
Beta strandi157 – 162Combined sources6
Beta strandi165 – 170Combined sources6
Turni171 – 173Combined sources3
Beta strandi176 – 181Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1SU1X-ray2.25A/B/C/D1-184[»]
ProteinModelPortaliP67095.
SMRiP67095.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP67095.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4108RE9. Bacteria.
COG0622. LUCA.
HOGENOMiHOG000293432.
InParanoidiP67095.
KOiK07095.
OMAiDILYHGP.
PhylomeDBiP67095.

Family and domain databases

Gene3Di3.60.21.10. 1 hit.
InterProiIPR024654. Calcineurin-like_PHP_lpxH.
IPR029052. Metallo-depent_PP-like.
IPR020935. PdiEstase_YfcE_CS.
IPR000979. Phosphodiesterase_MJ0936/Vps29.
[Graphical view]
PANTHERiPTHR11124. PTHR11124. 1 hit.
PfamiPF12850. Metallophos_2. 1 hit.
[Graphical view]
SUPFAMiSSF56300. SSF56300. 1 hit.
TIGRFAMsiTIGR00040. yfcE. 1 hit.
PROSITEiPS01269. UPF0025. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P67095-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMKLMFASDI HGSLPATERV LELFAQSGAQ WLVILGDVLN HGPRNALPEG
60 70 80 90 100
YAPAKVAERL NEVAHKVIAV RGNCDSEVDQ MLLHFPITAP WQQVLLEKQR
110 120 130 140 150
LFLTHGHLFG PENLPALNQN DVLVYGHTHL PVAEQRGEIF HFNPGSVSIP
160 170 180
KGGNPASYGM LDNDVLSVIA LNDQSIIAQV AINP
Length:184
Mass (Da):20,122
Last modified:October 11, 2004 - v1
Checksum:i15C5AA0BE6541AB6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75360.1.
AP009048 Genomic DNA. Translation: BAE76687.1.
PIRiB65002.
RefSeqiNP_416803.3. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAC75360; AAC75360; b2300.
BAE76687; BAE76687; BAE76687.
GeneIDi946755.
KEGGiecj:JW5377.
eco:b2300.
PATRICi32119971. VBIEscCol129921_2395.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75360.1.
AP009048 Genomic DNA. Translation: BAE76687.1.
PIRiB65002.
RefSeqiNP_416803.3. NC_000913.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1SU1X-ray2.25A/B/C/D1-184[»]
ProteinModelPortaliP67095.
SMRiP67095.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260515. 360 interactors.
STRINGi511145.b2300.

Proteomic databases

PaxDbiP67095.
PRIDEiP67095.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75360; AAC75360; b2300.
BAE76687; BAE76687; BAE76687.
GeneIDi946755.
KEGGiecj:JW5377.
eco:b2300.
PATRICi32119971. VBIEscCol129921_2395.

Organism-specific databases

EchoBASEiEB3861.
EcoGeneiEG14108. yfcE.

Phylogenomic databases

eggNOGiENOG4108RE9. Bacteria.
COG0622. LUCA.
HOGENOMiHOG000293432.
InParanoidiP67095.
KOiK07095.
OMAiDILYHGP.
PhylomeDBiP67095.

Enzyme and pathway databases

BioCyciEcoCyc:G7192-MONOMER.
ECOL316407:JW5377-MONOMER.
BRENDAi3.1.4.1. 2026.
3.1.4.16. 2026.

Miscellaneous databases

EvolutionaryTraceiP67095.
PROiP67095.

Family and domain databases

Gene3Di3.60.21.10. 1 hit.
InterProiIPR024654. Calcineurin-like_PHP_lpxH.
IPR029052. Metallo-depent_PP-like.
IPR020935. PdiEstase_YfcE_CS.
IPR000979. Phosphodiesterase_MJ0936/Vps29.
[Graphical view]
PANTHERiPTHR11124. PTHR11124. 1 hit.
PfamiPF12850. Metallophos_2. 1 hit.
[Graphical view]
SUPFAMiSSF56300. SSF56300. 1 hit.
TIGRFAMsiTIGR00040. yfcE. 1 hit.
PROSITEiPS01269. UPF0025. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiYFCE_ECOLI
AccessioniPrimary (citable) accession number: P67095
Secondary accession number(s): P76495, Q2MAL9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: October 11, 2004
Last modified: November 2, 2016
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.