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dut:On One Page

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Quickview | Gene | Product(s) | Expression| Evolution | References |

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See Help:Quickview for help with entering information in the Quickview table.

Standard Name

dut

Gene Synonym(s)

ECK3630, b3640, JW3615, dnaS, sof[1]

Product Desc.

Dut[2][3];

Component of deoxyuridine triphosphatase[2][3]

dUTP pyrophosphatase; dUTPase[4]

Product Synonyms(s)

deoxyuridinetriphosphatase[1], B3640[2][1], sof[2][1], DnaS[2][1], Dut[2][1]

Function from GO

Molecular Function

Cellular Component

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): dut-slmA[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(dut)    Textpresso(dut)

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See Help:Quickview for help with entering information in the Quickview table.

Notes

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dut is an essential gene.[4]



Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

dut

Mnemonic

dUTPase

Synonyms

ECK3630, b3640, JW3615, dnaS, sof[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

82.16 minutes 

MG1655: 3811955..3812410
gbrowse_img.php?coord=3811955..3812410&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3752287..3752742
gbrowse_img.php?coord=3752287..3752742&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 3826483..3826028
gbrowse_img.php?coord=3826028..3826483&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3909532..3909987
gbrowse_img.php?coord=3909532..3909987&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 3700281..3700736
gbrowse_img.php?coord=3700281..3700736&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature typeLocationDescription
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

dutD89N

D89N

Reduces catalytic activity 40000- fold

seeded from UniProt:P06968

dut-1

PMID:148458

CGSC:6840


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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

ResourceResource TypeSourceNotes/Reference

JW3615

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAAAAATCGACGTTAAGAT

Primer 2:CCtTGACGACCAGAGTGACCAAA

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[5]

est. P1 cotransduction: % [6]
Synonyms:zhf-50::Tn10, zhf-5::Tn10

zic-4901::Tn10

Linked marker

CAG18492 = CGSC7457[5]

est. P1 cotransduction: 57% [6]

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10251

EchoBASE (EcoliWiki Page)

EchoBASE:EB0247

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3640

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4464

EcoGene (EcoliWiki Page)

EcoGene:EG10251

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:DUT

CGSC (EcoliWiki Page)

CGSC:832

ASAP (EcoliWikiPage)

ASAP:ABE-0011899


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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

Dut

Synonyms

deoxyuridinetriphosphatase[1], B3640[2][1], sof[2][1], DnaS[2][1], Dut[2][1]

Product description

Dut[2][3];

Component of deoxyuridine triphosphatase[2][3]

dUTP pyrophosphatase; dUTPase[4]

EC number (for enzymes)
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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0046080

dUTP metabolic process

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008180
InterPro:IPR008181

P

Seeded from EcoCyc [7]

complete

GO:0016787

hydrolase activity

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003232
InterPro:IPR008181
SP_KW:KW-0378

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0009117

nucleotide metabolic process

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003232
SP_KW:KW-0546

P

Seeded from EcoCyc 12.5 [8]

complete

GO:0006220

pyrimidine nucleotide metabolic process

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00116

P

Seeded from EcoCyc [7]

complete

GO:0004170

dUTP diphosphatase activity

GO_REF:0000003
GO_REF:0000020

IEA: Inferred from Electronic Annotation

EC:3.6.1.23
HAMAP:MF_00116

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0004170

dUTP diphosphatase activity

PMID:346589

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0005829

cytosol

PMID:16858726

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc [7]

complete

GO:0015949

nucleobase, nucleoside and nucleotide interconversion

P

Seeded from EcoCyc 11.1[3].

required fields missing

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner TypePartnerNotesReferencesEvidence

Protein

Subunits of deoxyuridine triphosphatase

could be indirect

Protein

trkA

PMID:16606699

Experiment(s):EBI-1146377

Protein

moaE

PMID:16606699

Experiment(s):EBI-1146377

Protein

stfR

PMID:16606699

Experiment(s):EBI-1146377

Protein

lacZ

PMID:16606699

Experiment(s):EBI-1146377

Protein

pepD

PMID:16606699

Experiment(s):EBI-1146377

Protein

clpB

PMID:16606699

Experiment(s):EBI-1146377

Protein

metH

PMID:16606699

Experiment(s):EBI-1146377

Protein

rplW

PMID:16606699

Experiment(s):EBI-1146377

Protein

stpA

PMID:16606699

Experiment(s):EBI-1146377

Protein

ydbH

PMID:16606699

Experiment(s):EBI-1146377

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MKKIDVKILD PRVGKEFPLP TYATSGSAGL DLRACLNDAV ELAPGDTTLV PTGLAIHIAD
PSLAAMMLPR SGLGHKHGIV LGNLVGLIDS DYQGQLMISV WNRGQDSFTI QPGERIAQMI
FVPVVQAEFN LVEDFDATDR GEGGFGHSGR Q
Length

151

Mol. Wt

16.155 kDa

pI

5.0 (calculated)

Extinction coefficient

8,480 - 8,605 (calc based on 2 Y, 1 W, and 1 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

TypeResiduesDescriptionNotesReferences
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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource typeSourceNotes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:DUTP-PYROP-MONOMER

UniProt (EcoliWiki Page)

UniProt:P06968

PFAM (EcoliWiki Page)

PFAM:PF00692

RefSeq (EcoliWiki Page)

RefSeq:NP_418097


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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

dut-slmA

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Figure courtesy of RegulonDB

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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gbrowse_img.php?coord=3811935..3811975&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b3640 (EcoliWiki Page)

NCBI GEO profiles for dut

microarray

GenExpDB:b3640 (EcoliWiki Page)

Summary of data for dut from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to dut Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10251

EchoBASE (EcoliWiki Page)

EchoBASE:EB0247

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3640

EcoGene (EcoliWiki Page)

EcoGene:EG10251


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Notes

Links

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

OrganismHomologs (Statistics)Comments

Anopheles gambiae

  • ENSANGP00000001952 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000009358 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT3G46940 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000015916 (score: 1.000; bootstrap: 63%)
  • ENSBTAP00000012947 (score: 0.288)
  • ENSBTAP00000031396 (score: 0.135)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00026525 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00010609 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000021075 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000000051 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-041010-93 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-041010-93 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0230111 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0013349 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA18276-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000007930 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000249783 (score: 1.000; bootstrap: 100%)
  • ENSP00000303742 (score: 0.061)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000022213 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000003255 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1346051 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000009549 (score: 1.000; bootstrap: 80%)
  • ENSRNOP00000023387 (score: 0.688)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YBR252W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC6445c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000133083 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00018078001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000000815 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

DUT

From SHIGELLACYC

E. coli O157

DUT

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00692


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ 7.0 7.1 7.2 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 8.2 8.3 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

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