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Protein

Deoxyuridine 5'-triphosphate nucleotidohydrolase

Gene

dut

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.By similarity

Catalytic activityi

dUTP + H2O = dUMP + diphosphate.

Cofactori

Mg2+By similarity

Pathwayi: dUMP biosynthesis

This protein is involved in step 2 of the subpathway that synthesizes dUMP from dCTP (dUTP route).
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. Deoxyuridine 5'-triphosphate nucleotidohydrolase (dut)
This subpathway is part of the pathway dUMP biosynthesis, which is itself part of Pyrimidine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes dUMP from dCTP (dUTP route), the pathway dUMP biosynthesis and in Pyrimidine metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei122Substrate; via amide nitrogen and carbonyl oxygenBy similarity1
Binding sitei165SubstrateBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processNucleotide metabolism
LigandMagnesium, Metal-binding

Enzyme and pathway databases

ReactomeiR-DDI-499943. Interconversion of nucleotide di- and triphosphates.
UniPathwayiUPA00610; UER00666.

Names & Taxonomyi

Protein namesi
Recommended name:
Deoxyuridine 5'-triphosphate nucleotidohydrolase (EC:3.6.1.23)
Short name:
dUTPase
Alternative name(s):
dUTP pyrophosphatase
Gene namesi
Name:dut
ORF Names:DDB_G0293374
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 6, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0293374. dut.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003275821 – 179Deoxyuridine 5'-triphosphate nucleotidohydrolaseAdd BLAST179

Proteomic databases

PaxDbiQ54BW5.

Interactioni

Subunit structurei

Homotrimer.By similarity

Protein-protein interaction databases

STRINGi44689.DDB0230111.

Structurei

Secondary structure

1179
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi38 – 44Combined sources7
Beta strandi51 – 54Combined sources4
Beta strandi58 – 63Combined sources6
Beta strandi68 – 70Combined sources3
Beta strandi74 – 79Combined sources6
Beta strandi82 – 84Combined sources3
Beta strandi90 – 95Combined sources6
Helixi98 – 104Combined sources7
Beta strandi106 – 110Combined sources5
Beta strandi122 – 127Combined sources6
Beta strandi129 – 131Combined sources3
Beta strandi133 – 135Combined sources3
Beta strandi140 – 150Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5F9KX-ray2.18A/B/C38-179[»]
ProteinModelPortaliQ54BW5.
SMRiQ54BW5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni97 – 99Substrate bindingBy similarity3
Regioni111 – 114Substrate bindingBy similarity4
Regioni170 – 171Substrate bindingBy similarity2

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi21 – 26Poly-Asn6

Sequence similaritiesi

Belongs to the dUTPase family.Curated

Phylogenomic databases

eggNOGiKOG3370. Eukaryota.
COG0756. LUCA.
InParanoidiQ54BW5.
KOiK01520.
OMAiGVILINH.
PhylomeDBiQ54BW5.

Family and domain databases

CDDicd07557. trimeric_dUTPase. 1 hit.
InterProiView protein in InterPro
IPR029054. dUTPase-like.
IPR008181. dUTPase_1.
IPR033704. dUTPase_trimeric.
PfamiView protein in Pfam
PF00692. dUTPase. 1 hit.
SUPFAMiSSF51283. SSF51283. 1 hit.
TIGRFAMsiTIGR00576. dut. 1 hit.

Sequencei

Sequence statusi: Complete.

Q54BW5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPIEQKYFSL FSNLFKRLTT NNNNNNYLKM APPNFETFKV KKLSDKAIIP
60 70 80 90 100
QRGSKGAAGY DLSSAHELVV PAHGKALAMT DLQIAIPDGT YGRIAPRSGL
110 120 130 140 150
AWKNFIDCGA GVIDSDYRGN VGVVLFNHSD VDFKVAVGDR VAQLIFERIV
160 170
TPEPLEVDEI DETQRGAGGF GSTGVKVQN
Length:179
Mass (Da):19,532
Last modified:May 24, 2005 - v1
Checksum:i46187E1F460A533F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000204 Genomic DNA. Translation: EAL60754.1.
RefSeqiXP_629169.1. XM_629167.1.

Genome annotation databases

EnsemblProtistsiEAL60754; EAL60754; DDB_G0293374.
GeneIDi8629190.
KEGGiddi:DDB_G0293374.

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.

Entry informationi

Entry nameiDUT_DICDI
AccessioniPrimary (citable) accession number: Q54BW5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: May 24, 2005
Last modified: July 5, 2017
This is version 88 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families