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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	mug
Gene Synonym(s)	ygjF, ECK3058, b3068, JW3040, tdg, dug^[1]^[2], dug
Product Desc.	stationary phase mismatch/uracil DNA glycosylase^[2]^[3] Uracil DNA-glycosylase, G:U mismatch-specific, dsDNA-specific; excises uracil from DNA by base flipping mechanism; required for mutation avoidance in stationary phase; up-regulated in stationary phase^[4]
Product Synonyms(s)	G/U mismatch-specific DNA glycosylase^[1], B3068^[2]^[1], YgjF^[2]^[1], Mug^[2]^[1], dsUDG^[2]^[1] , dug, ECK3058, JW3040, ygjF, b3068
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): mug^[2]
Regulation/Activity
Quick Links
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Notes

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Endonuclease IV stimulates Mug activity in vitro by promoting disassociation from the DNA and enzyme turnover. Mug can also excise a damaged basepair, epsilonC:G, containing 3,N(4)-ethenocytosine. Native Mug has been verified using mass spec by Sung and Mosbaugh: 18670 daltons obs. vs 18673 calc. indicates initial Met is not clipped.^[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	mug
Mnemonic	Mismatch-specific Uracil DNA-Glycosylase
Synonyms	ygjF, ECK3058, b3068, JW3040, tdg, dug^[1]^[2], dug
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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	69.25 minutes	MG1655: 3213495..3212989 <gbrowseImage> name=NC_000913:3212989..3213495 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 3100137..3100643 <gbrowseImage> name=NC_012759:3100137..3100643 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3214129..3213623 <gbrowseImage> name=NC_007779:3213623..3214129 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3311240..3310734 <gbrowseImage> name=NC_010473:3310734..3311240 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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
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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
Δmug-759::kan					PMID:16738554	CGSC:106254
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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
	Plasmid clone	Shigen	PMID:16769691 Status: Primer 1: Primer 2:
19F2	Kohara Phage	Genobase	PMID:3038334
17E4	Kohara Phage	Genobase	PMID:3038334
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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:EG12717	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12717	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002372	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947560	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2576	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010073	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	YgjF
Synonyms	G/U mismatch-specific DNA glycosylase^[1], B3068^[2]^[1], YgjF^[2]^[1], Mug^[2]^[1], dsUDG^[2]^[1] , dug, ECK3058, JW3040, ygjF, b3068
Product description	stationary phase mismatch/uracil DNA glycosylase^[2]^[3] Uracil DNA-glycosylase, G:U mismatch-specific, dsDNA-specific; excises uracil from DNA by base flipping mechanism; required for mutation avoidance in stationary phase; up-regulated in stationary phase^[4]
EC number (for enzymes)	3.2.2.-^[1]
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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:0003677	DNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0238	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01956	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:IPR015637	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-0228	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:0006285	base-excision repair, AP site formation	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01956	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:0008263	pyrimidine-specific mismatch base pair DNA N-glycosylase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01956	F	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:IPR015637	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	References	Evidence
Protein	glpK	PMID:16606699	Experiment(s):EBI-1144720
Protein	ynaE	PMID:16606699	Experiment(s):EBI-1144720
Protein	ptrA	PMID:16606699	Experiment(s):EBI-1144720
Protein	ydfK	PMID:16606699	Experiment(s):EBI-1144720
Protein	rpsI	PMID:16606699	Experiment(s):EBI-1144720
Protein	rpsC	PMID:16606699	Experiment(s):EBI-1144720
Protein	rplD	PMID:16606699	Experiment(s):EBI-1144720
Protein	groL	PMID:16606699	Experiment(s):EBI-1144720
Protein	mngB	PMID:16606699	Experiment(s):EBI-1144720
Protein	holD	PMID:16606699	Experiment(s):EBI-1144720
Protein	ydbH	PMID:16606699	Experiment(s):EBI-1144720
Protein	ygfH	PMID:16606699	Experiment(s):EBI-1144720
Protein	slyD	PMID:16606699	Experiment(s):EBI-1144720
Protein	lacZ	PMID:16606699	Experiment(s):EBI-1144720
Protein	polB	PMID:16606699	Experiment(s):EBI-1144720
Protein	pepD	PMID:16606699	Experiment(s):EBI-1144720
Protein	rplQ	PMID:16606699	Experiment(s):EBI-1144720
Protein	ycgE	PMID:16606699	Experiment(s):EBI-1144720
Protein	fimC	PMID:16606699	Experiment(s):EBI-1144720
Protein	rplB	PMID:16606699	Experiment(s):EBI-1144720
Protein	yifB	PMID:16606699	Experiment(s):EBI-1144720
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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 MVEDILAPGL RVVFCGINPG LSSAGTGFPF AHPANRFWKV IYQAGFTDRQ LKPQEAQHLL DYRCGVTKLV DRPTVQANEV SKQELHAGGR KLIEKIEDYQ PQALAILGKQ AYEQGFSQRG AQWGKQTLTI GSTQIWVLPN PSGLSRVSLE KLVEAYRELD QALVVRGR
Length	168
Mol. Wt	18.672 kDa
pI	9.5 (calculated)
Extinction coefficient	23,950 - 24,200 (calc based on 5 Y, 3 W, and 2 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
Domain	3..163	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=mug 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:16130964	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947560	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010073	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A9H1	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12717	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12717	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947560	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002372	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2576	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	Reference(s)
Protein	E. coli	500	molecules/cell	Medium: LB Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other: Stationary phase cells were analyzed, but authors also report relative levels of Mug during exponential growth (see Figures 1 & 2).	quantitative western	PMID:11555290
Protein	E. coli K-12 MG1655	455	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	517	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	354	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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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
mug
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Figure courtesy of RegulonDB

</protect>

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_000913:3213475..3213515 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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:b3068 (EcoliWiki Page)	NCBI GEO profiles for mug
microarray	GenExpDB:b3068 (EcoliWiki Page)	Summary of data for mug 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 (3213026..3213286) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ13; Well:B9^[5]
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Notes

Accessions Related to mug Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12717	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2576	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3068
EcoGene	EcoGene:EG12717	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002372	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010073	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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
Apis mellifera	ENSAPMP00000003998 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000028828 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000011067 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000000109 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-050522-44 (score: 1.000; bootstrap: 100%) ZDB-CDNA-050522-44 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0026869 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA15170-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000020740 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000266775 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000028034 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000002685 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:108247 (score: 1.000; bootstrap: 100%) MGI:3645587 (score: 0.982)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000009130 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000037966 (score: 1.000; bootstrap: 100%) ENSRNOP00000045432 (score: 0.592)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPCC9655c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000179494 (score: 1.000; bootstrap: 100%) NEWSINFRUP00000148776 (score: 0.287)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00004540001 (score: 1.000; bootstrap: 100%) GSTENP00004541001 (score: 0.198)	From Inparanoid:20070104
E. coli O157	YGJF	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.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF03167 Uracil DNA glycosylase superfamily
Superfamily (EcoliWiki Page)	SUPERFAMILY:52141
Panther (EcoliWiki Page)	PTHR12159:SF7
PFAM (EcoliWiki Page)	PFAM:PF03167
EcoCyc	EcoCyc:EG12717	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12717	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002372	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2576	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010073	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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.
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

mug:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to mug Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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