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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	cirA
Gene Synonym(s)	ECK2148, b2155, JW2142, feuA, cir^[1], cir
Product Desc.	outer membrane receptor for iron-regulated colicin I receptor; porin; requires tonB gene^[2]^[3] Colicin I receptor production^[4]
Product Synonyms(s)	ferric iron-catecholate outer membrane transporter^[1], B2155^[2]^[1], Cir^[2]^[1], FeuA^[2]^[1], CirA^[2]^[1] , cir, ECK2148, feuA, JW2142, b2155
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): cirA^[2], OP00019, cir
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	cirA
Mnemonic	Colicin I resistance/receptor
Synonyms	ECK2148, b2155, JW2142, feuA, cir^[1], cir
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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	48.34 minutes	MG1655: 2244791..2242800 <gbrowseImage> name=NC_000913:2242800..2244791 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2198007..2196016 <gbrowseImage> name=NC_012967:2196016..2198007 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2135283..2137274 <gbrowseImage> name=NC_012759:2135283..2137274 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2250103..2248112 <gbrowseImage> name=NC_007779:2248112..2250103 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2335780..2333789 <gbrowseImage> name=NC_010473:2333789..2335780 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	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
Coding Start (SO:0000323)	MG1655	2242803	Edman degradation	PMID:3316180
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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)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔcirA (Keio:JW2142)	deletion	deletion			PMID:16738554	Shigen CGSC9736^[5]
cirA51						CGSC:6695
cirA52						CGSC:73247
ΔcirA782::kan					PMID:16738554	CGSC:100314
cirA(del)			Resistant to	Resistance to Colicin Ia	PMID:1444296	Experimental Strain: JAM^R	See Table 1, Fig. 5 & 9
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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
JW2142	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTTTAGGTTGAACCCTTTCGT Primer 2:CCGAAGCGATAATCCACTGCCAT
7F1	Kohara Phage	Genobase	PMID:3038334
7H12	Kohara Phage	Genobase	PMID:3038334
5H11	Kohara Phage	Genobase	PMID:3038334
zbd-3104::Tn10	Linked marker	CAG12021 = CGSC7344^[5]	est. P1 cotransduction: 2% ^[6] Synonyms:zbc-3105::Tn10, zbd-3105::Tn10
napA722::Tn10	Linked marker	CAG12098 = CGSC7400^[5]	est. P1 cotransduction: 5% ^[6] Synonyms:zeg-722, zei-722::Tn10
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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:EG10155	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10155	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000151	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:949042	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0153	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007126	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	CirA
Synonyms	ferric iron-catecholate outer membrane transporter^[1], B2155^[2]^[1], Cir^[2]^[1], FeuA^[2]^[1], CirA^[2]^[1] , cir, ECK2148, feuA, JW2142, b2155
Product description	outer membrane receptor for iron-regulated colicin I receptor; porin; requires tonB gene^[2]^[3] Colicin I receptor production^[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:0004872	receptor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000531	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004872	receptor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012910	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004872	receptor activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0675	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005215	transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000531	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005215	transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012910	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000531	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012910	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006810	transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0813	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006811	ion transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0406	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006826	iron ion transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0410	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009279	cell outer membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0998	C	Seeded from EcoCyc (v14.0)	complete
	GO:0009279	cell outer membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0040	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000531	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012910	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc (v14.0)	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	References	Evidence
Protein	rsuA	PMID:16606699	Experiment(s):EBI-1142040
Protein	tdcB	PMID:16606699	Experiment(s):EBI-1142040
Protein	cho	PMID:16606699	Experiment(s):EBI-1142040
Protein	sdhA	PMID:16606699	Experiment(s):EBI-1142040
Protein	rpsP	PMID:19402753	LCMS(ID Probability):99.5
Protein	rpsN	PMID:19402753	LCMS(ID Probability):99.6
Protein	hupA	PMID:19402753	LCMS(ID Probability):99.6
Protein	eno	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplD	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplJ	PMID:19402753	LCMS(ID Probability):99.6
Protein	atpA	PMID:19402753	MALDI(Z-score):22.019997
Protein	atpD	PMID:19402753	MALDI(Z-score):27.187543
Protein	rplL	PMID:19402753	LCMS(ID Probability):99.6
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Evidence	Reference/Source
outer membrane		From EcoCyc^[3]
Outer Membrane	PMID:3316180, PMID:16359331	EchoLocation:cirA
Outer Membrane	PMID:10430870	EchoLocation:cirA
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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 MFRLNPFVRV GLCLSAISCA WPVLAVDDDG ETMVVTASSV EQNLKDAPAS ISVITQEDLQ RKPVQNLKDV LKEVPGVQLT NEGDNRKGVS IRGLDSSYTL ILVDGKRVNS RNAVFRHNDF DLNWIPVDSI ERIEVVRGPM SSLYGSDALG GVVNIITKKI GQKWSGTVTV DTTIQEHRDR GDTYNGQFFT SGPLIDGVLG MKAYGSLAKR EKDDPQNSTT TDTGETPRIE GFSSRDGNVE FAWTPNQNHD FTAGYGFDRQ DRDSDSLDKN RLERQNYSVS HNGRWDYGTS ELKYYGEKVE NKNPGNSSPI TSESNTVDGK YTLPLTAINQ FLTVGGEWRH DKLSDAVNLT GGTSSKTSAS QYALFVEDEW RIFEPLALTT GVRMDDHETY GEHWSPRAYL VYNATDTVTV KGGWATAFKA PSLLQLSPDW TSNSCRGACK IVGSPDLKPE TSESWELGLY YMGEEGWLEG VESSVTVFRN DVKDRISISR TSDVNAAPGY QNFVGFETGA NGRRIPVFSY YNVNKARIQG VETELKIPFN DEWKLSINYT YNDGRDVSNG ENKPLSDLPF HTANGTLDWK PLALEDWSFY VSGHYTGQKR ADSATAKTPG GYTIWNTGAA WQVTKDVKLR AGVLNLGDKD LSRDDYSYNE DGRRYFMAVD YRF
Length	663
Mol. Wt	73.896 kDa
pI	5.0 (calculated)
Extinction coefficient	135,220 - 135,720 (calc based on 28 Y, 17 W, and 4 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
motif	1-25	UniProt Manual:Signal Peptides	UniProt:P17315
Domain	395..662	PF00593 TonB dependent receptor		PMID:19920124
Domain	43..152	PF07715 TonB-dependent Receptor Plug 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=cirA 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:16130093	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:949042	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007126	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P17315	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10155	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10155	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:949042	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000151	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0153	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 MC4100	4.83E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI		PMID:18304323
Protein	Ecoli K-12	0.378+/-0.037	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.014565545	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	79	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	79	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	22	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		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)
cirA
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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_000913:2244771..2244811 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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:b2155 (EcoliWiki Page)	NCBI GEO profiles for cirA
microarray	GenExpDB:b2155 (EcoliWiki Page)	Summary of data for cirA 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 (2244690..2245093) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ18; Well:H8^[7]
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Notes

Accessions Related to cirA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10155	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0153	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2155
EcoGene	EcoGene:EG10155	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000151	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007126	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
Xenopus tropicalis	ENSXETP00000051829 (score: 1.000; bootstrap: 94%)	From Inparanoid:20070104
E. coli O157	CIRA	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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

Database	Accession	Notes
Superfamily (EcoliWiki Page)	SUPERFAMILY:56935
Pfam (EcoliWiki Page)	PF00593 TonB dependent receptor
Pfam (EcoliWiki Page)	PF07715 TonB-dependent Receptor Plug Domain
EcoCyc	EcoCyc:EG10155	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10155	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000151	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0153	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007126	Escherichia coli str. K-12 substr. MG1655
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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.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 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
↑ ^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

cirA: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 cirA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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