yajR:Gene Product(s): Difference between revisions

Standard name	YajR
Synonyms	predicted transporter^[1], B0427^[2]^[1], YajR^[2]^[1]
Product description	YajR MFS transporter^[2]^[3] Putative transporter, function unknown; no overexpression resistances found^[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:0016021	integral to membrane	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR007114 SP_KW:KW-0812	C	Seeded from EcoCyc ^[5]	complete
	GO:0016020	membrane	GO_REF:0000004 GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0397 SP_KW:KW-0472	C	Seeded from EcoCyc 12.5 ^[6]	complete
	GO:0006810	transport	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR007114 SP_KW:KW-0813	P	Seeded from EcoCyc ^[5]	complete
	GO:0005215	transporter activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007114	F	Seeded from EcoCyc ^[5]	complete
	GO:0042493	response to drug				P	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0005886	plasma membrane	GO_REF:0000004 GO_REF:0000004 GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997 SP_KW:KW-1003 SP_SL:SL-0037	C	Seeded from EcoCyc ^[5]	complete
	GO:0005215	transporter activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007114	F	Seeded from EcoCyc	complete
	GO:0005886	plasma membrane	GO_REF:0000004 GO_REF:0000004 GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997 SP_KW:KW-1003 SP_SL:SL-0037	C	Seeded from EcoCyc	complete
	GO:0006810	transport	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR007114 SP_KW:KW-0813	P	Seeded from EcoCyc	complete
	GO:0016020	membrane	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc	complete
	GO:0016021	integral to membrane	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR007114 SP_KW:KW-0812	C	Seeded from EcoCyc	complete
	GO:0015292	uniporter activity				F	Seeded from EcoCyc 11.1^[3].	required fields missing
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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
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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
plasma membrane	C-terminus localized in the cytoplasm with 12 predicted transmembrane domains	Daley et al. (2005) ^[7]
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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 MVMNDYKMTP GERRATWGLG TVFSLRMLGM FMVLPVLTTY GMALQGASEA LIGIAIGIYG LTQAVFQIPF GLLSDRIGRK PLIVGGLAVF AAGSVIAALS DSIWGIILGR ALQGSGAIAA AVMALLSDLT REQNRTKAMA FIGVSFGITF AIAMVLGPII THKLGLHALF WMIAILATTG IALTIWVVPN SSTHVLNRES GMVKGSFSKV LAEPRLLKLN FGIMCLHILL MSTFVALPGQ LADAGFPAAE HWKVYLATML IAFGSVVPFI IYAEVKRKMK QVFVFCVGLI VVAEIVLWNA QTQFWQLVVG VQLFFVAFNL MEALLPSLIS KESPAGYKGT AMGVYSTSQF LGVAIGGSLG GWINGMFDGQ GVFLAGAMLA AVWLTVASTM KEPPYVSSLR IEIPANIAAN EALKVRLLET EGIKEVLIAE EEHSAYVKID SKVTNRFEIE QAIRQA
Length	456
Mol. Wt	49.041 kDa
pI	9.4 (calculated)
Extinction coefficient	62,910 - 63,160 (calc based on 9 Y, 9 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
Domain	52 - 74	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	81 - 100	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	104 - 126	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	139 - 161	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	166 - 188	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	219 - 241	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	256 - 275	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	282 - 304	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	308 - 330	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	343 - 365	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	370 - 387	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
Domain	20 - 42	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[8]
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<motif_map/>

Click the image to view raw output from TMHMM.

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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Structure figures

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:B0427-MONOMER
UniProt (EcoliWiki Page)	UniProt:P77726
PFAM (EcoliWiki Page)	PFAM:PF07690
RefSeq (EcoliWiki Page)	RefSeq:NP_414961
ModBase (EcoliWiki Page)	ModBase:P77726
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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.

↑ ^1.0 ^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 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 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
↑ ^8.00 ^8.01 ^8.02 ^8.03 ^8.04 ^8.05 ^8.06 ^8.07 ^8.08 ^8.09 ^8.10 ^8.11 Krogh, A et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305 567-80 PubMed

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 ===Notes===

yajR:Gene Product(s): Difference between revisions

Revision as of 17:14, 23 July 2009

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

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yajR:Gene Product(s): Difference between revisions

Revision as of 17:14, 23 July 2009

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

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