mug:Gene Product(s): Difference between revisions

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|-
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!align=left {{table heading style}} |Standard name
!align=left |Standard name
||
||
YgjF  
YgjF  
|-
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!align=left {{table heading style}} |Synonyms
!align=left |Synonyms
||
||
G/U mismatch-specific DNA glycosylase<ref name='LIB:Riley_2006'/>, B3068<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgjF<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Mug<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, dsUDG<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
G/U mismatch-specific DNA glycosylase<ref name='LIB:Riley_2006'/>, B3068<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgjF<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Mug<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, dsUDG<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
|-
|-
!align=left {{table heading style}} |Product description
!align=left |Product description
||
||
stationary phase mismatch/uracil DNA glycosylase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
stationary phase mismatch/uracil DNA glycosylase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
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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<ref name='LIB:EcoGene'/>
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<ref name='LIB:EcoGene'/>
|-
|-
!align=left {{table heading style}} |EC number (for enzymes)
!align=left |EC number (for enzymes)
||
||
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.- 3.2.2.-]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.- 3.2.2.-]<ref name='LIB:Riley_2006'/>


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!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
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complete  
complete  


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Experiment(s):EBI-1144720<br />  
Experiment(s):EBI-1144720<br />  


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!|Compartment!!Description!!Evidence!!Source!!Notes
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|-
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!align=left {{table heading style}} |Sequence
!align=left |Sequence
||
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG12717-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=EG12717-MONOMER at EcoCyc]  
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AQWGKQTLTI GSTQIWVLPN PSGLSRVSLE KLVEAYRELD QALVVRGR</pre>  
AQWGKQTLTI GSTQIWVLPN PSGLSRVSLE KLVEAYRELD QALVVRGR</pre>  
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!align=left {{table heading style}} |Length
!align=left |Length
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168
168
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!align=left {{table heading style}} |Mol. Wt
!align=left |Mol. Wt
||
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18.672 kDa
18.672 kDa
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!align=left {{table heading style}} |pI
!align=left |pI
||
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9.5 (calculated)
9.5 (calculated)
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!align=left {{table heading style}} |Extinction coefficient
!align=left |Extinction coefficient
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23,950 - 24,200 (calc based on 5 Y, 3 W, and 2 C residues)
23,950 - 24,200 (calc based on 5 Y, 3 W, and 2 C residues)


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<beststructure>
<beststructure>
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</beststructure>
</beststructure>
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!align=left |Models
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View models at:
View models at:
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* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


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Revision as of 02:17, 9 January 2010

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

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]

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)
edit table


Notes

Function

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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(s) Evidence Code with/from Aspect Notes Status
GO:0003677

DNA binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc [5]

complete

GO:0005737

cytoplasm

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc 12.5 [6]

complete

GO:0006281

DNA repair

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0228
SP_KW:KW-0234

P

Seeded from EcoCyc 12.5 [6]

complete

GO:0006285

base-excision repair, AP site formation

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01956

P

Seeded from EcoCyc [5]

complete

GO:0006974

response to DNA damage stimulus

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc [5]

complete

GO:0008152

metabolic process

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0326

P

Seeded from EcoCyc [5]

complete

GO:0008263

pyrimidine-specific mismatch base pair DNA N-glycosylase activity

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01956

F

Seeded from EcoCyc [5]

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc [5]

complete

GO:0016798

hydrolase activity, acting on glycosyl bonds

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0326

F

Seeded from EcoCyc [5]

complete

GO:0016799

hydrolase activity, hydrolyzing N-glycosyl compounds

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015637

F

Seeded from EcoCyc [5]

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

glpK

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

ynaE

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

ptrA

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

ydfK

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

rpsI

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

rpsC

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

rplD

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

groL

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

mngB

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

holD

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

ydbH

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

ygfH

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

slyD

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

lacZ

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

polB

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

pepD

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

rplQ

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

ycgE

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

fimC

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

rplB

PMID:16606699[7]

Experiment(s):EBI-1144720

Protein

yifB

PMID:16606699[7]

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 Source Notes
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Notes

Structure and Physical Properties

[back to top]


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

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
edit table

<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:

edit table

Structure figures

Notes

Gene Product Resources

[back to top]


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

EcoCyc (EcoliWiki Page)

EcoCyc:EG12717-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0A9H1

PFAM (EcoliWiki Page)

PFAM:PF03167

RefSeq (EcoliWiki Page)

RefSeq:NP_417540


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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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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 5.3 5.4 5.5 5.6 5.7 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.0 6.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 7.16 7.17 7.18 7.19 7.20 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed

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