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Protein

5'-deoxynucleotidase YfbR

Gene

yfbR

Organism
Salmonella typhi
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)LengthDescriptionGraphical viewFeature identifierActions
Sitei18 – 181Appears to be important in orienting the phosphate for catalysisUniRule annotation
Metal bindingi33 – 331Divalent metal cation; via tele nitrogenUniRule annotation
Binding sitei33 – 331SubstrateUniRule annotation
Metal bindingi68 – 681Divalent metal cation; via tele nitrogenUniRule annotation
Metal bindingi69 – 691Divalent metal cationUniRule annotation
Binding sitei69 – 691SubstrateUniRule annotation
Metal bindingi137 – 1371Divalent metal cationUniRule annotation
Binding sitei137 – 1371SubstrateUniRule annotation

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:STY2562, t0532
OrganismiSalmonella typhi
Taxonomic identifieri90370 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
Proteomesi
  • UP000002670 Componenti: Chromosome
  • UP000000541 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 1991995'-deoxynucleotidase YfbRPRO_0000095057Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi220341.STY2562.

Structurei

3D structure databases

ProteinModelPortaliQ8Z524.
SMRiQ8Z524. Positions 2-187.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni18 – 192Substrate bindingUniRule annotation
Regioni77 – 804Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the 5DNU family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105DK2. Bacteria.
COG1896. LUCA.
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.

Q8Z524-1 [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 ELHDIFAPLI DENAWSKEEQ AIVKQADALC AYLKCLEELS
160 170 180 190
AGNNEFRLAK TRLEKTLELR RSQEMDYFMA VFVPSFHLSL DEISQDSPL
Length:199
Mass (Da):22,776
Last modified:March 1, 2002 - v1
Checksum:i8789AE1B8A9706B4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL513382 Genomic DNA. Translation: CAD07564.1.
AE014613 Genomic DNA. Translation: AAO68238.1.
RefSeqiNP_456874.1. NC_003198.1.
WP_000813878.1. NZ_LUHL01000025.1.

Genome annotation databases

EnsemblBacteriaiAAO68238; AAO68238; t0532.
CAD07564; CAD07564; CAD07564.
GeneIDi1248887.
KEGGistt:t0532.
sty:STY2562.
PATRICi18543090. VBISalEnt120419_2593.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL513382 Genomic DNA. Translation: CAD07564.1.
AE014613 Genomic DNA. Translation: AAO68238.1.
RefSeqiNP_456874.1. NC_003198.1.
WP_000813878.1. NZ_LUHL01000025.1.

3D structure databases

ProteinModelPortaliQ8Z524.
SMRiQ8Z524. Positions 2-187.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi220341.STY2562.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAO68238; AAO68238; t0532.
CAD07564; CAD07564; CAD07564.
GeneIDi1248887.
KEGGistt:t0532.
sty:STY2562.
PATRICi18543090. VBISalEnt120419_2593.

Phylogenomic databases

eggNOGiENOG4105DK2. Bacteria.
COG1896. LUCA.
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_SALTI
AccessioniPrimary (citable) accession number: Q8Z524
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2002
Last sequence update: March 1, 2002
Last modified: September 7, 2016
This is version 88 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

Complete proteome

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.