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Protein

5'-deoxynucleotidase YfbR

Gene

yfbR

Organism
Shigella dysenteriae serotype 1 (strain Sd197)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the strictly specific dephosphorylation of 2'-deoxyribonucleoside 5'-monophosphates.UniRule annotation

Catalytic activityi

A 2'-deoxyribonucleoside 5'-monophosphate + H2O = a 2'-deoxyribonucleoside + phosphate.UniRule annotation

Cofactori

a divalent metal cationUniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei18Appears to be important in orienting the phosphate for catalysisUniRule annotation1
Metal bindingi33Divalent metal cation; via tele nitrogenUniRule annotation1
Binding sitei33SubstrateUniRule annotation1
Metal bindingi68Divalent metal cation; via tele nitrogenUniRule annotation1
Metal bindingi69Divalent metal cationUniRule annotation1
Binding sitei69SubstrateUniRule annotation1
Metal bindingi137Divalent metal cationUniRule annotation1
Binding sitei137SubstrateUniRule annotation1

GO - Molecular functioni

Keywordsi

Molecular functionHydrolase
LigandMetal-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
5'-deoxynucleotidase YfbRUniRule annotation (EC:3.1.3.89UniRule annotation)
Alternative name(s):
5'-deoxyribonucleotidaseUniRule annotation
Nucleoside 5'-monophosphate phosphohydrolaseUniRule annotation
Gene namesi
Name:yfbRUniRule annotation
Ordered Locus Names:SDY_2487
OrganismiShigella dysenteriae serotype 1 (strain Sd197)
Taxonomic identifieri300267 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeShigella
Proteomesi
  • UP000002716 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000649581 – 1995'-deoxynucleotidase YfbRAdd BLAST199

Proteomic databases

PRIDEiQ32DP8.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliQ32DP8.
SMRiQ32DP8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini30 – 142HDPROSITE-ProRule annotationAdd BLAST113

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni18 – 19Substrate bindingUniRule annotation2
Regioni77 – 80Substrate bindingUniRule annotation4

Sequence similaritiesi

Belongs to the 5DNU family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000276964.
KOiK08722.
OMAiNQSHFFA.
OrthoDBiPOG091H00DC.

Family and domain databases

CDDicd00077. HDc. 1 hit.
HAMAPiMF_01100. 5DNU. 1 hit.
InterProiView protein in InterPro
IPR003607. HD/PDEase_dom.
IPR006674. HD_domain.
IPR022971. YfbR.
PfamiView protein in Pfam
PF13023. HD_3. 1 hit.
SMARTiView protein in SMART
SM00471. HDc. 1 hit.
PROSITEiView protein in PROSITE
PS51831. HD. 1 hit.

Sequencei

Sequence statusi: Complete.

Q32DP8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKQSHFFAHL SRLKLINRWP LMRNVRTENV SEHSLQVAMV AHALAAIKNR
60 70 80 90 100
KFGGNVNAER IALLAMYHDA SEVLTGDLPT PVKYFNSQIA QEYKAIEKIA
110 120 130 140 150
QQKLVDMVPE ELRDIFAPLI DEHAYSDEEK SLVKQADALC AYLKCLEELA
160 170 180 190
AGNNEFLLAK TRLEATLAAR RSQEMDYFME VFVPSFHLSL DEISQDSPL
Length:199
Mass (Da):22,636
Last modified:December 6, 2005 - v1
Checksum:iE5344C6AC30DA053
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000034 Genomic DNA. Translation: ABB62557.1.
RefSeqiWP_000813857.1. NC_007606.1.
YP_404048.1. NC_007606.1.

Genome annotation databases

EnsemblBacteriaiABB62557; ABB62557; SDY_2487.
GeneIDi3797607.
KEGGisdy:SDY_2487.
PATRICifig|300267.13.peg.2998.

Similar proteinsi

Entry informationi

Entry namei5DNU_SHIDS
AccessioniPrimary (citable) accession number: Q32DP8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: December 6, 2005
Last modified: September 27, 2017
This is version 70 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families