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Protein

5'-deoxynucleotidase YPTS_2685

Gene

YPTS_2685

Organism
Yersinia pseudotuberculosis serotype IB (strain PB1/+)
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
Sitei16 – 161Appears to be important in orienting the phosphate for catalysisUniRule annotation
Metal bindingi31 – 311Divalent metal cation; via tele nitrogenUniRule annotation
Binding sitei31 – 311SubstrateUniRule annotation
Metal bindingi66 – 661Divalent metal cation; via tele nitrogenUniRule annotation
Metal bindingi67 – 671Divalent metal cationUniRule annotation
Binding sitei67 – 671SubstrateUniRule annotation
Metal bindingi135 – 1351Divalent metal cationUniRule annotation
Binding sitei135 – 1351SubstrateUniRule annotation

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciYPSE502801:GHIH-2812-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
5'-deoxynucleotidase YPTS_2685UniRule annotation (EC:3.1.3.89UniRule annotation)
Alternative name(s):
5'-deoxyribonucleotidaseUniRule annotation
Nucleoside 5'-monophosphate phosphohydrolaseUniRule annotation
Gene namesi
Ordered Locus Names:YPTS_2685
OrganismiYersinia pseudotuberculosis serotype IB (strain PB1/+)
Taxonomic identifieri502801 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia

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 – 1971975'-deoxynucleotidase YPTS_2685PRO_1000136980Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliB2K824.
SMRiB2K824. Positions 2-184.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni16 – 172Substrate bindingUniRule annotation
Regioni75 – 784Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the 5DNU family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000276964.
KOiK08722.
OMAiMPTPIKY.
OrthoDBiEOG696C17.

Family and domain databases

Gene3Di1.10.3210.10. 1 hit.
HAMAPiMF_01100. 5DNU.
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.

B2K824-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSHFFAHLSR LKLINRWPLM RNVRTENVSE HSLQVAFVAH ALAIIKNRKF
60 70 80 90 100
NGNLNAERIA LLAMYHDASE VITGDLPTPI KYHNPKIAHE YKKIEKVAQQ
110 120 130 140 150
KLIEMLPKEL QHDFRCLLDE HYYSEEEKAL VKQADALCAY LKCLEELSAG
160 170 180 190
NNEFIQAKAR LEKTLAIRQS PEMDYFMAVF VPSFSLSLDE ISLDSLD
Length:197
Mass (Da):22,729
Last modified:June 10, 2008 - v1
Checksum:iB3AC752101903423
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001048 Genomic DNA. Translation: ACC89645.1.
RefSeqiWP_002210283.1. NZ_CP009780.1.

Genome annotation databases

EnsemblBacteriaiACC89645; ACC89645; YPTS_2685.
KEGGiypb:YPTS_2685.
PATRICi18653428. VBIYerPse20639_2919.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001048 Genomic DNA. Translation: ACC89645.1.
RefSeqiWP_002210283.1. NZ_CP009780.1.

3D structure databases

ProteinModelPortaliB2K824.
SMRiB2K824. Positions 2-184.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACC89645; ACC89645; YPTS_2685.
KEGGiypb:YPTS_2685.
PATRICi18653428. VBIYerPse20639_2919.

Phylogenomic databases

HOGENOMiHOG000276964.
KOiK08722.
OMAiMPTPIKY.
OrthoDBiEOG696C17.

Enzyme and pathway databases

BioCyciYPSE502801:GHIH-2812-MONOMER.

Family and domain databases

Gene3Di1.10.3210.10. 1 hit.
HAMAPiMF_01100. 5DNU.
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...

Publicationsi

  1. "Complete sequence of Yersinia pseudotuberculosis PB1/+."
    Copeland A., Lucas S., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Munk A.C., Brettin T., Detter J.C., Han C., Tapia R., Schmutz J., Larimer F., Land M., Hauser L.
    , Challacombe J.F., Green L., Lindler L.E., Nikolich M.P., Richardson P.
    Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PB1/+.

Entry informationi

Entry namei5DNU_YERPB
AccessioniPrimary (citable) accession number: B2K824
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: June 10, 2008
Last modified: November 11, 2015
This is version 51 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.