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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	carA
Gene Synonym(s)	ECK0033, b0032, JW0030, arg+ura, cap, pyrA, arg^[1], arg
Product Desc.	CarA^[2]^[3]; Component of carbamoyl phosphate synthetase^[2]^[3] Carbamoyl phosphate synthase, small subunit; glutamine-hydrolyzing, tetramer of heterodimers^[4]
Product Synonyms(s)	carbamoyl phosphate synthetase small subunit, glutamine amidotransferase^[1], B0032^[2]^[1], Arg^[2]^[1], Cap^[2]^[1], PyrA^[2]^[1], α chain^[2]^[1], small chain^[2]^[1], CarA^[2]^[1] , arg, cap, ECK0033, JW0030, pyrA, b0032
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): carAB^[2], OP00150, pyrA
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	carA
Mnemonic	Carbamoyl P
Synonyms	ECK0033, b0032, JW0030, arg+ura, cap, pyrA, arg^[1], arg
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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	0.64 minutes	MG1655: 29651..30799 <gbrowseImage> name=NC_000913:29651..30799 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 33722..34870 <gbrowseImage> name=NC_012967:33722..34870 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 29651..30799 <gbrowseImage> name=NC_012759:29651..30799 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 29651..30799 <gbrowseImage> name=NC_007779:29651..30799 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 29651..30799 <gbrowseImage> name=NC_010473:29651..30799 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	29651	Edman degradation	PMID:3894020 PMID:9298646 PMID:9740056
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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
carA(del) (Keio:JW0030)	deletion	deletion	PMID:16738554	Shigen
arg-47				CGSC:4690
arg-23				CGSC:5987
carA50				CGSC:6597
carA178				CGSC:6600
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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
JW0030	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCATTAAGTCAGCGCTATTGGT Primer 2:CCCTTAGCGGTTTTACGGTACTG
22B12	Kohara Phage	Genobase	PMID:3038334
thrA34::Tn10	Linked marker	CAG18442 = CGSC7320^[5]	est. P1 cotransduction: 32% ^[6] Synonyms:thr-34::Tn10
carB96::Tn10	Linked marker	CAG12093 = CGSC7322^[5]	est. P1 cotransduction: 91% ^[6] Synonyms:car-96::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:EG10134	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10134	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000130	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:949025	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0132	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000118	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	CarA
Synonyms	carbamoyl phosphate synthetase small subunit, glutamine amidotransferase^[1], B0032^[2]^[1], Arg^[2]^[1], Cap^[2]^[1], PyrA^[2]^[1], α chain^[2]^[1], small chain^[2]^[1], CarA^[2]^[1] , arg, cap, ECK0033, JW0030, pyrA, b0032
Product description	CarA^[2]^[3]; Component of carbamoyl phosphate synthetase^[2]^[3] Carbamoyl phosphate synthase, small subunit; glutamine-hydrolyzing, tetramer of heterodimers^[4]
EC number (for enzymes)	6.3.5.5^[1]
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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:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0000166	nucleotide binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000991	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001317	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006220	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011702	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004086	carbamoyl-phosphate synthase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002474	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004086	carbamoyl-phosphate synthase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006274	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004088	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01209	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004088	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:6.3.5.5	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	PMID:2682645	IDA: Inferred from Direct Assay		C		complete
	GO:0005515	protein binding	PMID:2682645	IMP: Inferred from Mutant Phenotype		F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01209	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0067	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005829	cytosol	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0005515	protein binding	PMID:2682645	IMP: Inferred from Mutant Phenotype		F	CarB	complete
	GO:0006221	pyrimidine nucleotide biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01209	P	Seeded from EcoCyc (v14.0)	complete
Contributes to	GO:0004088	carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity	PMID:1827118	IMP: Inferred from Mutant Phenotype		F		complete
	GO:0006221	pyrimidine nucleotide biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0665	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006541	glutamine metabolic process	PMID:1827118	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0006526	arginine biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01209	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006526	arginine biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0055	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006526	arginine biosynthetic process	PMID:5319709	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0006541	glutamine metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001317	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006207	'de novo' pyrimidine base biosynthetic process	PMID:5319709	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0006541	glutamine metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011702	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006541	glutamine metabolic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0315	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016874	ligase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0436	F	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	Notes	References	Evidence
Protein	Subunits of carbamoyl phosphate synthetase	could be indirect
Protein	carB		PMID:15690043	Experiment(s):EBI-880588, EBI-886422
Protein	murE		PMID:15690043	Experiment(s):EBI-888940
Protein	carB		PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):38.299212
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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 MIKSALLVLE DGTQFHGRAI GATGSAVGEV VFNTSMTGYQ EILTDPSYSR QIVTLTYPHI GNVGTNDADE ESSQVHAQGL VIRDLPLIAS NFRNTEDLSS YLKRHNIVAI ADIDTRKLTR LLREKGAQNG CIIAGDNPDA ALALEKARAF PGLNGMDLAK EVTTAEAYSW TQGSWTLTGG LPEAKKEDEL PFHVVAYDFG AKRNILRMLV DRGCRLTIVP AQTSAEDVLK MNPDGIFLSN GPGDPAPCDY AITAIQKFLE TDIPVFGICL GHQLLALASG AKTVKMKFGH HGGNHPVKDV EKNVVMITAQ NHGFAVDEAT LPANLRVTHK SLFDGTLQGI HRTDKPAFSF QGHPEASPGP HDAAPLFDHF IELIEQYRKT AK
Length	382
Mol. Wt	41.431 kDa
pI	6.3 (calculated)
Extinction coefficient	22,920 - 23,420 (calc based on 8 Y, 2 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	References
Domain	3..133	PF00988 Carbamoyl-phosphate synthase small chain, CPSase domain	PMID:19920124
Domain	194..373	PF00117 Glutamine amidotransferase class-I	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=carA taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

Structure figures

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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
NCBI (Protein) (EcoliWiki Page)	GI:16128026	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000118	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A6F1	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10134	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10134	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:949025	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000130	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:949025	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0132	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	7.46E+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	477.221+/-2.529	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.544425087	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 EMG2	620	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: M89	PMID: 9298646
Protein	E. coli K-12 MG1655	456	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	5516	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	220	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)
carAB
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Figure courtesy of RegulonDB

</protect>

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_000913:29631..29671 source=MG1655 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:b0032 (EcoliWiki Page)	NCBI GEO profiles for carA
microarray	GenExpDB:b0032 (EcoliWiki Page)	Summary of data for carA 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
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Notes

Accessions Related to carA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10134	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0132	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0032
EcoGene	EcoGene:EG10134	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000130	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000118	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
Arabidopsis thaliana	AT3G27740 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6YV24 (score: 1.000; bootstrap: 100%) Q8S3R8 (score: 0.905) Q6YV23 (score: 0.770)	From Inparanoid:20070104
Saccharomyces cerevisiae	YOR303W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC56F29c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	CARA	From SHIGELLACYC
E. coli O157	CARA	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
Pfam (EcoliWiki Page)	PF00117 Glutamine amidotransferase class-I
Pfam (EcoliWiki Page)	PF00988 Carbamoyl-phosphate synthase small chain, CPSase domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:52021
Superfamily (EcoliWiki Page)	SUPERFAMILY:52317
Panther (EcoliWiki Page)	PTHR11405:SF4
EcoCyc	EcoCyc:EG10134	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10134	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000130	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0132	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000118	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 ^1.12 ^1.13 ^1.14 ^1.15 ^1.16 ^1.17 ^1.18 ^1.19 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 ^2.11 ^2.12 ^2.13 ^2.14 ^2.15 ^2.16 ^2.17 ^2.18 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 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 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).

carA:On One Page

Quickview

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 carA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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