Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

5'-deoxynucleotidase YPO2559

Gene

YPO2559

Organism
Yersinia pestis
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

BioCyciYPES214092:GKDD-2526-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
5'-deoxynucleotidase YPO2559UniRule annotation (EC:3.1.3.89UniRule annotation)
Alternative name(s):
5'-deoxyribonucleotidaseUniRule annotation
Nucleoside 5'-monophosphate phosphohydrolaseUniRule annotation
Gene namesi
Ordered Locus Names:YPO2559, y1627, YP_2370
OrganismiYersinia pestis
Taxonomic identifieri632 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
Proteomesi
  • UP000000815 Componenti: Chromosome
  • UP000001019 Componenti: Chromosome
  • UP000002490 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 – 1971975'-deoxynucleotidase YPO2559PRO_0000095065Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi187410.y1627.

Structurei

3D structure databases

ProteinModelPortaliQ8ZDK3.
SMRiQ8ZDK3. 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

eggNOGiENOG4105DK2. Bacteria.
COG1896. LUCA.
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.

Q8ZDK3-1 [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:March 1, 2002 - v1
Checksum:iB3AC752101903423
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL590842 Genomic DNA. Translation: CAL21184.1.
AE009952 Genomic DNA. Translation: AAM85196.1.
AE017042 Genomic DNA. Translation: AAS62575.1.
PIRiAE0312.
RefSeqiWP_002210283.1. NZ_LIXY01000015.1.
YP_002347520.1. NC_003143.1.

Genome annotation databases

EnsemblBacteriaiAAM85196; AAM85196; y1627.
AAS62575; AAS62575; YP_2370.
GeneIDi1175390.
KEGGiype:YPO2559.
ypj:CH55_52.
ypk:y1627.
ypl:CH46_2556.
ypm:YP_2370.
ypv:BZ15_978.
ypw:CH59_93.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL590842 Genomic DNA. Translation: CAL21184.1.
AE009952 Genomic DNA. Translation: AAM85196.1.
AE017042 Genomic DNA. Translation: AAS62575.1.
PIRiAE0312.
RefSeqiWP_002210283.1. NZ_LIXY01000015.1.
YP_002347520.1. NC_003143.1.

3D structure databases

ProteinModelPortaliQ8ZDK3.
SMRiQ8ZDK3. Positions 2-184.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi187410.y1627.

Protocols and materials databases

DNASUi1146574.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM85196; AAM85196; y1627.
AAS62575; AAS62575; YP_2370.
GeneIDi1175390.
KEGGiype:YPO2559.
ypj:CH55_52.
ypk:y1627.
ypl:CH46_2556.
ypm:YP_2370.
ypv:BZ15_978.
ypw:CH59_93.

Phylogenomic databases

eggNOGiENOG4105DK2. Bacteria.
COG1896. LUCA.
HOGENOMiHOG000276964.
KOiK08722.
OMAiMPTPIKY.
OrthoDBiEOG696C17.

Enzyme and pathway databases

BioCyciYPES214092:GKDD-2526-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CO-92 / Biovar Orientalis.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: KIM10+ / Biovar Mediaevalis.
  3. "Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans."
    Song Y., Tong Z., Wang J., Wang L., Guo Z., Han Y., Zhang J., Pei D., Zhou D., Qin H., Pang X., Han Y., Zhai J., Li M., Cui B., Qi Z., Jin L., Dai R.
    , Chen F., Li S., Ye C., Du Z., Lin W., Wang J., Yu J., Yang H., Wang J., Huang P., Yang R.
    DNA Res. 11:179-197(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 91001 / Biovar Mediaevalis.

Entry informationi

Entry namei5DNU_YERPE
AccessioniPrimary (citable) accession number: Q8ZDK3
Secondary accession number(s): Q0WDW8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2002
Last sequence update: March 1, 2002
Last modified: May 11, 2016
This is version 95 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, Reference 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.