nemR:Gene Product(s): Difference between revisions

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F
F
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Seeded from EcoCyc
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complete
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GO:0006350
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transcription
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GO_REF:0000004
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IEA: Inferred from Electronic Annotation
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SP_KW:KW-0804
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P
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Seeded from EcoCyc
Seeded from EcoCyc

Revision as of 03:21, 22 May 2009

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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

YdhM

Synonyms

predicted DNA-binding transcriptional regulator[1], B1649[2][1], YdhM[2][1]

Product description

hypothetical protein[2]; predicted DNA-binding transcriptional regulator[3]. YdhM binding to the ydhM-nemA promoter is reduced by addition of NEM. Genomic SELEX identifies a binding site for YdhM in the ydhM-nemA promoter region. [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. 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:0006355

regulation of transcription, DNA-dependent

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0003677

DNA binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR012287
SP_KW:KW-0238

F

Seeded from EcoCyc [5]

complete

GO:0003700

transcription factor activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001647

F

Seeded from EcoCyc [5]

complete

GO:0005515

protein binding

PMID:15690043[6]

IPI: Inferred from Physical Interaction

UniProtKB:P04951

F

Seeded from EcoCyc [5]

complete

GO:0006350

transcription

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc [5]

complete

GO:0030528

transcription regulator activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011075

F

Seeded from EcoCyc [5]

complete

GO:0045449

regulation of transcription

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011075
InterPro:IPR012287

P

Seeded from EcoCyc [5]

complete

GO:0003677

DNA binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR012287
SP_KW:KW-0238

F

Seeded from EcoCyc

complete

GO:0003700

transcription factor activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001647

F

Seeded from EcoCyc

complete

GO:0005515

protein binding

PMID:15690043[6]

IPI: Inferred from Physical Interaction

UniProtKB:P04951

F

Seeded from EcoCyc

complete

GO:0006350

transcription

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc

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

kdsB

PMID:15690043[6]

Experiment(s):EBI-890408

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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 Notes
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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 

MNKHTEHDTR EHLLATGEQL CLQRGFTGMG LSELLKTAEV PKGSFYHYFR SKEAFGVAML
ERHYAAYHQR LTELLQSGEG NYRDRILAYY QQTLNQFCQH GTISGCLTVK LSAEVCDLSE
DMRSAMDKGA RGVIALLSQA LENGRENHCL TFCGEPLQQA QVLYALWLGA NLQAKISRSF
EPLENALAHV KNIIATPAV
Length

199

Mol. Wt

199

pI

19.07 kDa (calc) [2]

Extinction coefficient


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

Domains/Motifs/Modification Sites

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

Type Residues Description Notes

Domain

7 - 67

HTH tetR-type

UniProt:P67430

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

<motif_map/>

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

Structures

<beststructure>ydhM 562</beststructure>

Models

View models at:

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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

EcoCyc (EcoliWiki Page)

EcoCyc:G6889-MONOMER

UniProt (EcoliWiki Page)

UniProt:P67430

PFAM (EcoliWiki Page)

PFAM:PF00440

RefSeq (EcoliWiki Page)

RefSeq:NP_416166

ModBase (EcoliWiki Page)

ModBase:P67430


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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. ↑ 1.0 1.1 1.2 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 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. ↑ Umezawa, Y et al. (2008) The uncharacterized transcription factor YdhM is the regulator of the nemA gene, encoding N-ethylmaleimide reductase. J. Bacteriol. 190 5890-7 PubMed
  5. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.0 6.1 6.2 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed


Categories

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