yafC:Gene Product(s): Difference between revisions

Standard name	YafC
Synonyms	predicted DNA-binding transcriptional regulator^[1], B0208^[2]^[1], YafC^[2]^[1]
Product description	predicted DNA-binding transcriptional regulator LYSR-type^[2]^[3] Putative LysR-family transcriptional regulator, function unknown^[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.

Qualifier	GO ID	GO term name	Reference(s)	Evidence Code	with/from	Aspect	Notes	Status
	GO:0006355	regulation of transcription, DNA-dependent	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR000847 SP_KW:KW-0805	P	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:0003700	transcription factor activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000847	F	Seeded from EcoCyc ^[5]	complete
	GO:0003677	DNA binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0238	F	Seeded from EcoCyc ^[5]	complete
	GO:0005515	protein binding	PMID:16606699^[6]	IPI: Inferred from Physical Interaction	UniProtKB:P0A7B1	F	Seeded from EcoCyc ^[5]	complete
	GO:0003677	DNA binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0238	F	Seeded from EcoCyc	complete
	GO:0016564	transcription repressor activity				F	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0016563	transcription activator activity				F	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0003700	transcription factor activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000847	F	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	ppk		PMID:16606699^[6]	Experiment(s):EBI-1135942
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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 MKATSEELAI FVSVVESGSF SRAAEQLGQA NSAVSRAVKK LEMKLGVSLL NRTTRQLSLT EEGERYFRRV QSILQEMAAA ESEIMETRNT PRGLLRIDAA TPVVLHFLMP LIKPFRERYP EVTLSLVSSE TIINLIERKV DVAIRAGTLT DSSLRARPLF NSYRKIIASP DYISRYGKPE TIDDLKQHIC LGFTEPASLN TWPIARSDGQ LHEVKYGLSS NSGETLKQLC LSGNGIACLS DYMIDKEIAR GELVELMADK VLPVEMPFSA VYYSDRAVST RIRAFIDFLS EHVKTAPGGA VREA
Length	304
Mol. Wt	33.78 kDa (calc) ^[2]
pI
Extinction coefficient	18910 - 19285 (calc based on 9 Y, 1 W, and 3 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
Domain	1 - 60	HTH lysR-type	UniProt:P30864
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<motif_map/>

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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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:EG11649-MONOMER
UniProt (EcoliWiki Page)	UniProt:P30864
PFAM (EcoliWiki Page)	PFAM:PF00126
RefSeq (EcoliWiki Page)	RefSeq:NP_414744
ModBase (EcoliWiki Page)	ModBase:P30864
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Notes

Links

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Name	URL	Comments
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References

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↑ ^1.0 ^1.1 ^1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^3.1 ^3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 ^5.3 ^5.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
↑ ^6.0 ^6.1 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed

yafC:Gene Product(s): Difference between revisions

Revision as of 08:15, 22 May 2009

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

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 Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
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+complete
+|-
+|
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+GO:0003677
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+DNA binding
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+GO_REF:0000004
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+IEA: Inferred from Electronic Annotation
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+SP_KW:KW-0238
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+F
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+Seeded from EcoCyc
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 complete
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-GO:0003677
+GO:0003700
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-DNA binding
+transcription factor activity
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-GO_REF:0000004
+GO_REF:0000002
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 IEA: Inferred from Electronic Annotation
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-SP_KW:KW-0238
+InterPro:IPR000847
 |
 F

yafC:Gene Product(s): Difference between revisions

Revision as of 08:15, 22 May 2009

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

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