ung:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

ung

Gene Synonym(s)

ECK2578, b2580, JW2564[1], JW2564

Product Desc.

uracil-DNA-glycosylase[2][3]

Uracil-DNA glycosylase; UDG excises uracil from DNA by base flipping mechanism; prefers ssDNA over dsDNA[4]

Product Synonyms(s)

uracil-DNA-glycosylase[1], B2580[2][1], Ung[2][1] , ECK2578, JW2564, b2580

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ung[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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UDG and Ndk form a complex (Goswami, 2006). UDG binds SSB C-terminus. CpxRA negatively regulates ung.[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

ung

Mnemonic

Uracil nucleic acid glycosylase

Synonyms

ECK2578, b2580, JW2564[1], JW2564

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Notes

Location(s) and DNA Sequence

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

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

58.51 minutes 

MG1655: 2714776..2715465
<gbrowseImage> name=NC_000913:2714776..2715465 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2638247..2638936
<gbrowseImage> name=NC_012967:2638247..2638936 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2600581..2601270
<gbrowseImage> name=NC_012759:2600581..2601270 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2715410..2716099
<gbrowseImage> name=NC_007779:2715410..2716099 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2806541..2807230
<gbrowseImage> name=NC_010473:2806541..2807230 source=DH10B preset=GeneLocation </gbrowseImage>

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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 Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

2714779

Edman degradation

PMID:2836397


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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.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ung(del) (Keio:JW2564)

deletion

deletion

PMID:16738554

Shigen
CGSC10039[5]

ung::Tn5KAN-I-SceI (FB20861)

Insertion at nt 376 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20861

does not contain pKD46

ung::Tn5KAN-I-SceI (FB20862)

Insertion at nt 376 in Minus orientation

PMID:15262929

E. coli Genome Project:FB20862

contains pKD46

ung-1

CGSC:6844

ung-152::Tn10

CGSC:10637

ung-8

CGSC:74109

ung-2

CGSC:74111

ung-3

CGSC:74112

ung-6

CGSC:74113

ung-4

CGSC:74116

ung-5

CGSC:74118

ung-7

CGSC:74120

ung-748(del)::kan

PMID:16738554

CGSC:103324


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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

Resource Resource Type Source Notes/Reference

JW2564

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCTAACGAATTAACCTGGCA

Primer 2:CCtTCACTCTCTGCCGGTAATAC

4A12

Kohara Phage

Genobase

PMID:3038334

3F10

Kohara Phage

Genobase

PMID:3038334

nadB51::Tn10

Linked marker

CAG18480 = CGSC7419[5]

est. P1 cotransduction: 84% [6]

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 43% [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.

Database Accession Notes

EcoCyc

EcoCyc:EG11058

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11058

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001047

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947067

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1051

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008495

Escherichia coli str. K-12 substr. MG1655

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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

Ung

Synonyms

uracil-DNA-glycosylase[1], B2580[2][1], Ung[2][1] , ECK2578, JW2564, b2580

Product description

uracil-DNA-glycosylase[2][3]

Uracil-DNA glycosylase; UDG excises uracil from DNA by base flipping mechanism; prefers ssDNA over dsDNA[4]

EC number (for enzymes)
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Notes

Function

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

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0004844

uracil DNA N-glycosylase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00148

F

Seeded from EcoCyc (v14.0)

complete

GO:0004844

uracil DNA N-glycosylase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002043

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00148

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018085

P

Seeded from EcoCyc (v14.0)

complete

GO:0006281

DNA repair

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0234

P

Seeded from EcoCyc (v14.0)

complete

GO:0006284

base-excision repair

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00148

P

Seeded from EcoCyc (v14.0)

complete

GO:0006284

base-excision repair

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002043

P

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0326

P

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0016798

hydrolase activity, acting on glycosyl bonds

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0326

F

Seeded from EcoCyc (v14.0)

complete

GO:0016799

hydrolase activity, hydrolyzing N-glycosyl compounds

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018085

F

Seeded from EcoCyc (v14.0)

complete

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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 Type Partner Notes References Evidence

Protein

hsdM

PMID:15690043

Experiment(s):EBI-892674

Protein

ssb

PMID:16606699

Experiment(s):EBI-1143357

Protein

prs

PMID:16606699

Experiment(s):EBI-1143357

Protein

ttdB

PMID:16606699

Experiment(s):EBI-1143357

Protein

groL

PMID:16606699

Experiment(s):EBI-1143357

Protein

rplB

PMID:16606699

Experiment(s):EBI-1143357

Protein

hsdM

PMID:19402753

LCMS(ID Probability):99.6

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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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

Name
Sequence

at EcoCyc 

MANELTWHDV LAEEKQQPYF LNTLQTVASE RQSGVTIYPP QKDVFNAFRF TELGDVKVVI
LGQDPYHGPG QAHGLAFSVR PGIAIPPSLL NMYKELENTI PGFTRPNHGY LESWARQGVL
LLNTVLTVRA GQAHSHASLG WETFTDKVIS LINQHREGVV FLLWGSHAQK KGAIIDKQRH
HVLKAPHPSP LSAHRGFFGC NHFVLANQWL EQRGETPIDW MPVLPAESE
Length

229

Mol. Wt

25.692 kDa

pI

7.2 (calculated)

Extinction coefficient

40,450 - 40,575 (calc based on 5 Y, 6 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.

Type Residues Description Notes References

Initiator Methionine

1

Removed

UniProt:P12295

Domain

50..211

PF03167 Uracil DNA glycosylase superfamily

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=ung taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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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 type Source Notes/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.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130505

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947067

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008495

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P12295

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11058

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11058

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947067

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001047

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1051

Escherichia coli str. K-12 substr. MG1655

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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

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

Ecoli K-12

14.487+/-0.059

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.029027576

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

1058

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

439

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

718

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

ung

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Figure courtesy of RegulonDB

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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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<protect><gbrowseImage> name=NC_000913:2714756..2714796 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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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

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

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2580 (EcoliWiki Page)

NCBI GEO profiles for ung

microarray

GenExpDB:b2580 (EcoliWiki Page)

Summary of data for ung 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 Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2714386..2714839) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ12; Well:D12[7]

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Notes

Accessions Related to ung Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11058

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1051

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2580

EcoGene

EcoGene:EG11058

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001047

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008495

Escherichia coli str. K-12 substr. MG1655

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Notes

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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.

Organism Homologs (Statistics) Comments

Arabidopsis thaliana

  • AT3G18630 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000026445 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00034107 (score: 1.000; bootstrap: 100%)
  • WBGene00042492 (score: 0.185)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00013241 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000016407 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000014499 (score: 0.650)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000005659 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040426-900 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-1828 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0214910 (score: 1.000; bootstrap: 75%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000033675 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000007986 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000242576 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000024145 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:109352 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q4JF19 (score: 1.000; bootstrap: 100%)
  • Q7XQA5 (score: 0.611)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000009190 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000000872 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YML021C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPCC11836 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000155102 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00029513001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000048248 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

UNG

From SHIGELLACYC

E. coli O157

UNG

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Pfam (EcoliWiki Page)

PF03167 Uracil DNA glycosylase superfamily

Superfamily (EcoliWiki Page)

SUPERFAMILY:52141

Panther (EcoliWiki Page)

PTHR11264:SF0

EcoCyc

EcoCyc:EG11058

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11058

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001047

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1051

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008495

Escherichia coli str. K-12 substr. MG1655

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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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 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 5.2 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. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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