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Expression|

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Standard Name	cbrA
Gene Synonym(s)	ECK3682, b3690, JW5631, yidS^[1], yidS
Product Desc.	predicted oxidoreductase with FAD/NAD(P)-binding domain^[2]^[3] Function unknown, creBC regulon; induced by AI-2 pheromone^[4]
Product Synonyms(s)	predicted oxidoreductase with FAD/NAD(P)-binding domain^[1], B3690^[2]^[1], YidS^[2]^[1], CbrA^[2]^[1] , ECK3682, JW5631, yidS, b3690
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): cbrA^[2]
Regulation/Activity
Quick Links
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Notes

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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	cbrA
Mnemonic	CreB-regulated
Synonyms	ECK3682, b3690, JW5631, yidS^[1], yidS
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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	83.35 minutes	MG1655: 3867400..3868464 <gbrowseImage> name=NC_000913:3867400..3868464 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3829738..3830802 <gbrowseImage> name=NC_012967:3829738..3830802 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3755733..3756797 <gbrowseImage> name=NC_012759:3755733..3756797 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3771038..3769974 <gbrowseImage> name=NC_007779:3769974..3771038 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	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)	Reference	Availability
ΔcbrA (Keio:JW5631)	deletion	deletion	PMID:16738554	Shigen CGSC11490^[5]
ΔcbrA726::kan			PMID:16738554	CGSC:100248
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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
JW5631	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGAACATTTCGACGTGGCGAT Primer 2:CCATCCTTCAACTGTGGAATATG
3D1	Kohara Phage	Genobase	PMID:3038334
8E8	Kohara Phage	Genobase	PMID:3038334
zic-4901::Tn10	Linked marker	CAG18492 = CGSC7457^[5]	est. P1 cotransduction: 19% ^[6]
zid-501::Tn10	Linked marker	CAG18499 = CGSC7458^[5]	est. P1 cotransduction: 80% ^[6]
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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:EG11714	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11714	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001657	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948197	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1665	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012068	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	CbrA
Synonyms	predicted oxidoreductase with FAD/NAD(P)-binding domain^[1], B3690^[2]^[1], YidS^[2]^[1], CbrA^[2]^[1] , ECK3682, JW5631, yidS, b3690
Product description	predicted oxidoreductase with FAD/NAD(P)-binding domain^[2]^[3] Function unknown, creBC regulon; induced by AI-2 pheromone^[4]
EC number (for enzymes)
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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:0004497	monooxygenase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002938	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003042	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016491	oxidoreductase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003042	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002938	P	Seeded from EcoCyc (v14.0)	complete
	GO:0004174	electron-transferring-flavoprotein dehydrogenase activity	GO_REF:0000024	ISA: Inferred from Sequence Alignment	UniProtKB:P55931	F	PIG:ETFD PMID:4052375 PMID:17050691	complete
	GO:0050660	FAD binding	GO_REF:0000024	ISA: Inferred from Sequence Alignment	UniProtKB:P55931	F	PIG:ETFD PMID:4052375 PMID:17050691	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GO_REF:0000024	ISA: Inferred from Sequence Alignment	UniProtKB:P55931	F	PIG:ETFD PMID:4052375 PMID:17050691	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
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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 MMNVSEKMEH FDVAIIGLGP AGSALARKLA GKMQVIALDK KHQCGTEGFS KPCGGLLAPD AQRSFIRDGL TLPVDVIANP QIFSVKTVDV AASLTRNYQR SYININRHAF DLWMKSLIPA SVEVYHDSLC RKIWREDDKW HVIFRADGWE QHITARYLVG ADGANSMVRR HLYPDHQIRK YVAIQQWFAE KHPVPFYSCI FDNSITNCYS WSISKDGYFI FGGAYPMKDG QTRFTTLKEK MSAFQFQFGK TVKSEKCTVL FPSRWQDFVC GKDNAFLIGE AAGFISASSL EGISYALDST DILRSVLLKQ PEKLNTAYWR ATRKLRLKLF GKIVKSRCLT APALRKWIMR SGVAHIPQLK D
Length	361
Mol. Wt	40.963 kDa
pI	9.8 (calculated)
Extinction coefficient	67,380 - 68,380 (calc based on 12 Y, 9 W, and 8 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	112..235	PF01494 FAD binding domain		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=cbrA 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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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:90111640	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948197	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012068	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P31456	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11714	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11714	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948197	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001657	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1665	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	Notes	Reference(s)
Protein	E. coli K-12 MG1655	9^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	2^a	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
cbrA
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Figure courtesy of RegulonDB

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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_000913:3867380..3867420 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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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:b3690 (EcoliWiki Page)	NCBI GEO profiles for cbrA
microarray	GenExpDB:b3690 (EcoliWiki Page)	Summary of data for cbrA 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 (3866870..3867016) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ18; Well:D6^[7]
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Notes

Accessions Related to cbrA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11714	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1665	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3690
EcoGene	EcoGene:EG11714	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001657	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012068	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
Shigella flexneri	YIDS	From SHIGELLACYC
E. coli O157	YIDS	From ECOO157CYC
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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01494 FAD binding domain
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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 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 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 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 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 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 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

cbrA: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 cbrA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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