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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

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Standard Name	aceA
Gene Synonym(s)	ECK4007, b4015, JW3975, icl^[1], icl
Product Desc.	isocitrate lyase^[2]^[3]; Component of isocitrate lyase^[2]^[3] Isocitrate lyase, acetate utilization, glyoxylate shunt; tetrameric^[4]
Product Synonyms(s)	isocitrate lyase^[1], B4015^[2]^[1], Icl^[2]^[1], AceA^[2]^[1] , ECK4007, icl, JW3975, b4015
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): aceBAK^[2], OP00001, ace
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	aceA
Mnemonic	Acetate
Synonyms	ECK4007, b4015, JW3975, icl^[1], icl
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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
BW2952		NC_012759: 4104812..4106116 <gbrowseImage> name=NC_012759:4104812..4106116 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
MG1655	90.85 minutes	MG1655: 4215132..4216436 <gbrowseImage> name=NC_000913:4215132..4216436 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4196554..4197858 <gbrowseImage> name=NC_012967:4196554..4197858 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
W3110		W3110: 4220699..4222003 <gbrowseImage> name=NC_007779:4220699..4222003 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4314828..4316132 <gbrowseImage> name=NC_010473:4314828..4316132 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	4215132	Edman degradation	PMID:3049537 PMID:10094700
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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
aceAC195A		C195A	Auxotrophies	Large decrease in activity			seeded from UniProt:P0A9G6
aceAC195S		C195S	Auxotrophies	Large decrease in activity			seeded from UniProt:P0A9G6
ΔaceA (Keio:JW3975)	deletion	deletion	Auxotrophies		PMID:16738554	Shigen CGSC10858^[5]
ΔaceA::kan	deletion		Biolog:respiration	unable to respire Acetate	PMID:16095938
aceA5			Auxotrophies			CGSC:7663
aceA1			Auxotrophies			CGSC:8191
aceA3			Auxotrophies			CGSC:9103
aceA4			Auxotrophies			CGSC:11716
aceA7			Auxotrophies			CGSC:11819
ΔaceA782::kan	deletion	deletion	Auxotrophies		PMID:16738554	CGSC:99882
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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
JW3975	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAAACCCGTACACAACAAAT Primer 2:CCGAACTGCGATTCTTCAGTGGA
6G10	Kohara Phage	Genobase	PMID:3038334
thiC39::Tn10	Linked marker	CAG18500 = CGSC7472^[5]	est. P1 cotransduction: 47% ^[6] Synonyms:thi-39::Tn10
malF3089::Tn10	Linked marker	CAG12164 = CGSC7476^[5]	est. P1 cotransduction: 38% ^[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:EG10022	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10022	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000019	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948517	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0021	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013128	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	AceA
Synonyms	isocitrate lyase^[1], B4015^[2]^[1], Icl^[2]^[1], AceA^[2]^[1] , ECK4007, icl, JW3975, b4015
Product description	isocitrate lyase^[2]^[3]; Component of isocitrate lyase^[2]^[3] Isocitrate lyase, acetate utilization, glyoxylate shunt; tetrameric^[4]
EC number (for enzymes)	4.1.3.1^[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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000918	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015813	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018523	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004451	isocitrate lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006254	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004451	isocitrate lyase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.1.3.1	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006097	glyoxylate cycle	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0329	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006099	tricarboxylic acid cycle	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0816	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000918	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018523	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016829	lyase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0456	F	Seeded from EcoCyc (v14.0)	complete
	GO:0019752	carboxylic acid metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006254	P	Seeded from EcoCyc (v14.0)	complete
	GO:0004451	isocitrate lyase activity	PMID:3291954	IDA: Inferred from Direct Assay		F		complete
	GO:0043169	cation binding	PMID:3291954	IDA: Inferred from Direct Assay		F		complete
	GO:0005737	cytoplasm	PMID:3291954	IC: Inferred by Curator		C		Missing: with/from
	GO:0006097	glyoxylate cycle	PMID:366070	IC: Inferred by Curator	GO:0004451	P		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 isocitrate lyase	could be indirect
Protein	hisS		PMID:16606699	Experiment(s):EBI-1147289
Protein	napA		PMID:16606699	Experiment(s):EBI-1147289
Protein	aceB	expression of aceA and aceB are closely linked genetically and are coordinately controlled aceA and aceB comprise an operon	PMID:7033207
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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 MKTRTQQIEE LQKEWTQPRW EGITRPYSAE DVVKLRGSVN PECTLAQLGA AKMWRLLHGE SKKGYINSLG ALTGGQALQQ AKAGIEAVYL SGWQVAADAN LAASMYPDQS LYPANSVPAV VERINNTFRR ADQIQWSAGI EPGDPRYVDY FLPIVADAEA GFGGVLNAFE LMKAMIEAGA AAVHFEDQLA SVKKCGHMGG KVLVPTQEAI QKLVAARLAA DVTGVPTLLV ARTDADAADL ITSDCDPYDS EFITGERTSE GFFRTHAGIE QAISRGLAYA PYADLVWCET STPDLELARR FAQAIHAKYP GKLLAYNCSP SFNWQKNLDD KTIASFQQQL SDMGYKFQFI TLAGIHSMWF NMFDLANAYA QGEGMKHYVE KVQQPEFAAA KDGYTFVSHQ QEVGTGYFDK VTTIIQGGTS SVTALTGSTE ESQF
Length	434
Mol. Wt	47.521 kDa
pI	5.1 (calculated)
Extinction coefficient	69,330 - 69,955 (calc based on 17 Y, 8 W, and 5 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	7..259	PF00463 Isocitrate lyase family	PMID:19920124
Domain	255..434	PF00463 Isocitrate lyase family	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=aceA 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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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:16131841	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948517	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013128	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A9G6	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10022	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10022	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948517	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000019	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0021	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	Reference(s)
Protein	E. coli K-12 MG1655	1483	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	14155	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	2523	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)
aceBAK
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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_000913:4215112..4215152 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:b4015 (EcoliWiki Page)	NCBI GEO profiles for aceA
microarray	GenExpDB:b4015 (EcoliWiki Page)	Summary of data for aceA 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 aceA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10022	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0021	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4015
EcoGene	EcoGene:EG10022	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000019	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013128	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
Anopheles gambiae	ENSANGP00000028888 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT3G21720 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0230179 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6Z6M4 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YPR006C (score: 1.000; bootstrap: 100%) YER065C (score: 0.148)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC16831c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000010759 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	ACEA	From SHIGELLACYC
E. coli O157	ACEA	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)	PF00463 Isocitrate lyase family
Pfam (EcoliWiki Page)	PF00463 Isocitrate lyase family
Superfamily (EcoliWiki Page)	SUPERFAMILY:51621
Panther (EcoliWiki Page)	PTHR21631:SF3
EcoCyc	EcoCyc:EG10022	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10022	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000019	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0021	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013128	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 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 ^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 ^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).

aceA:On One Page

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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 aceA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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