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Protein

5'-deoxynucleotidase YfbR

Gene

yfbR

Organism
Salmonella paratyphi A (strain AKU_12601)
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

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Metal-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:SSPA0496
OrganismiSalmonella paratyphi A (strain AKU_12601)
Taxonomic identifieri554290 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeSalmonella

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001369771 – 1995'-deoxynucleotidase YfbRAdd BLAST199

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliB5BCL4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

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.
OMAiMPTPIKY.

Family and domain databases

Gene3Di1.10.3210.10. 1 hit.
HAMAPiMF_01100. 5DNU. 1 hit.
InterProiIPR003607. HD/PDEase_dom.
IPR006674. HD_domain.
IPR022971. YfbR.
[Graphical view]
PfamiPF13023. HD_3. 1 hit.
[Graphical view]
SMARTiSM00471. HDc. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B5BCL4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKQSHFFAHL SRMKLINRWP LMRNVRTENV SEHSLQVAMV AHALAAIKNR
60 70 80 90 100
KFGGQLNAER IALLAMYHDA SEVLTGDLPT PVKYFNSQIA QEYKAIEKIA
110 120 130 140 150
QQKLVDMAPD ELRDIFAPLI DENAWSEEEQ AIVKQADALC AYLKCLEELS
160 170 180 190
AGNNEFGLAK TRLEKTLELR RSQEMDYFMA VFVPSFHLSL DEISQDSPL
Length:199
Mass (Da):22,697
Last modified:September 23, 2008 - v1
Checksum:i7193B30D8B30167E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FM200053 Genomic DNA. Translation: CAR58625.1.
RefSeqiWP_000813882.1. NC_011147.1.

Genome annotation databases

EnsemblBacteriaiCAR58625; CAR58625; SSPA0496.
KEGGisek:SSPA0496.
PATRICi32340624. VBISalEnt134303_0567.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FM200053 Genomic DNA. Translation: CAR58625.1.
RefSeqiWP_000813882.1. NC_011147.1.

3D structure databases

ProteinModelPortaliB5BCL4.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAR58625; CAR58625; SSPA0496.
KEGGisek:SSPA0496.
PATRICi32340624. VBISalEnt134303_0567.

Phylogenomic databases

HOGENOMiHOG000276964.
KOiK08722.
OMAiMPTPIKY.

Family and domain databases

Gene3Di1.10.3210.10. 1 hit.
HAMAPiMF_01100. 5DNU. 1 hit.
InterProiIPR003607. HD/PDEase_dom.
IPR006674. HD_domain.
IPR022971. YfbR.
[Graphical view]
PfamiPF13023. HD_3. 1 hit.
[Graphical view]
SMARTiSM00471. HDc. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry namei5DNU_SALPK
AccessioniPrimary (citable) accession number: B5BCL4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: September 23, 2008
Last modified: November 2, 2016
This is version 53 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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.