{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Standard Name	lysC
Gene Synonym(s)	ECK4016, b4024, JW3984, apk^[1], apk
Product Desc.	LysC^[2]^[3]; Component of aspartate kinase III^[2]^[3] Aspartokinase III^[4]
Product Synonyms(s)	aspartokinase III^[1], B4024^[2]^[1], Apk^[2]^[1], LysC^[2]^[1] , apk, ECK4016, JW3984, b4024
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): lysC^[2]
Regulation/Activity
Quick Links
edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]

Mutations in an L box riboswitch regulated by free lysine is in the lysC mRNA 5' UTR confer resistance to S-(2-aminoethyl)-L-cysteine (AEC) by derepressing lysine biosynthesis and outcompeting AEC inhibition of LysRS (Ataide, 2007).^[4]

Gene

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]

See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	lysC
Mnemonic	Lysine
Synonyms	ECK4016, b4024, JW3984, apk^[1], apk
edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]

<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	91.17 minutes	MG1655: 4231256..4229907 <gbrowseImage> name=NC_000913:4229907..4231256 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4212164..4210815 <gbrowseImage> name=NC_012967:4210815..4212164 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4119587..4120936 <gbrowseImage> name=NC_012759:4119587..4120936 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4236823..4235474 <gbrowseImage> name=NC_007779:4235474..4236823 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4330952..4329603 <gbrowseImage> name=NC_010473:4329603..4330952 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
edit table

</protect>

Notes

Sequence Features

[back to top]

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	4229910	Edman degradation	PMID:3003049
edit table

Notes

Alleles and Phenotypes

[back to top]

See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔlysC (Keio:JW3984)	deletion	deletion	PMID:16738554	Shigen CGSC10866^[5]
lysC1001				CGSC:5347
lysC1004				CGSC:5351
lysC1000				CGSC:73737
ΔlysC720::kan			PMID:16738554	CGSC:101708
edit table

Notes

Genetic Interactions

[back to top]

Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]

See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW3984	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCTGAAATTGTTGTCTCCAA Primer 2:CCtTCAAACAAATTACTATGCAG
4E5	Kohara Phage	Genobase	PMID:3038334
7A4	Kohara Phage	Genobase	PMID:3038334
thiC39::Tn10	Linked marker	CAG18500 = CGSC7472^[5]	est. P1 cotransduction: 23% ^[6] Synonyms:thi-39::Tn10
malF3089::Tn10	Linked marker	CAG12164 = CGSC7476^[5]	est. P1 cotransduction: 69% ^[6]
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10550	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10550	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000543	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948531	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0545	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013156	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Product(s)

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	LysC
Synonyms	aspartokinase III^[1], B4024^[2]^[1], Apk^[2]^[1], LysC^[2]^[1] , apk, ECK4016, JW3984, b4024
Product description	LysC^[2]^[3]; Component of aspartate kinase III^[2]^[3] Aspartokinase III^[4]
EC number (for enzymes)	2.7.2.4^[1]
edit table

Notes

Function

[back to top]

<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: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:0004072	aspartate kinase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001341	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004072	aspartate kinase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005260	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004072	aspartate kinase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR018042	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004072	aspartate kinase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.7.2.4	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:0016597	amino acid binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002912	F	Seeded from EcoCyc (v14.0)	complete
edit table

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 aspartate kinase III	could be indirect
edit table

</protect>

Notes

Localization

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

Compartment	Description	Evidence	Reference/Source	Notes
edit table

Notes

Structure and Physical Properties

[back to top]

<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 MSEIVVSKFG GTSVADFDAM NRSADIVLSD ANVRLVVLSA SAGITNLLVA LAEGLEPGER FEKLDAIRNI QFAILERLRY PNVIREEIER LLENITVLAE AAALATSPAL TDELVSHGEL MSTLLFVEIL RERDVQAQWF DVRKVMRTND RFGRAEPDIA ALAELAALQL LPRLNEGLVI TQGFIGSENK GRTTTLGRGG SDYTAALLAE ALHASRVDIW TDVPGIYTTD PRVVSAAKRI DEIAFAEAAE MATFGAKVLH PATLLPAVRS DIPVFVGSSK DPRAGGTLVC NKTENPPLFR ALALRRNQTL LTLHSLNMLH SRGFLAEVFG ILARHNISVD LITTSEVSVA LTLDTTGSTS TGDTLLTQSL LMELSALCRV EVEEGLALVA LIGNDLSKAC GVGKEVFGVL EPFNIRMICY GASSHNLCFL VPGEDAEQVV QKLHSNLFE
Length	449
Mol. Wt	48.532 kDa
pI	4.9 (calculated)
Extinction coefficient	16,960 - 17,585 (calc based on 4 Y, 2 W, and 5 C residues)
edit table

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..278	PF00696 Amino acid kinase family	PMID:19920124
Domain	317..379	PF01842 ACT domain	PMID:19920124
edit table

<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=lysC taxon=562,83333 </beststructure>

Models

View models at:

edit table

</protect>

Structure figures

</protect>

Notes

Gene Product Resources

[back to top]

See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16131850	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013156	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P08660	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10550	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10550	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948531	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000543	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948531	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0545	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Expression

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]

See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	1.32E+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	E. coli K-12 MG1655	397	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	2887	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	1225	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
edit table

Notes

Transcription and Transcriptional Regulation

[back to top]

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
lysC
edit table

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

[back to top]

<protect><gbrowseImage> name=NC_000913:4231236..4231276 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

</protect>

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

[back to top]

<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
edit table

Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b4024 (EcoliWiki Page)	NCBI GEO profiles for lysC
microarray	GenExpDB:b4024 (EcoliWiki Page)	Summary of data for lysC from multiple microarray studies
edit table

Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
edit table

Notes

Accessions Related to lysC Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10550	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0545	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4024
EcoGene	EcoGene:EG10550	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000543	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013156	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Evolution

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]

See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Arabidopsis thaliana	AT5G13280 (score: 1.000; bootstrap: 100%) AT3G02020 (score: 0.567) AT5G14060 (score: 0.561)	From Inparanoid:20070104
Oryza gramene	Q6YS32 (score: 1.000; bootstrap: 100%) Q6YS33 (score: 0.994) Q851Z6 (score: 0.700) Q5JK18 (score: 0.640) Q9MAX0 (score: 0.429)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC19F54 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	LYSC	From SHIGELLACYC
E. coli O157	LYSC	From ECOO157CYC
edit table

Do-It-Yourself Web Tools

Notes

Families

[back to top]

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

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01842 ACT domain
Pfam (EcoliWiki Page)	PF00696 Amino acid kinase family
Superfamily (EcoliWiki Page)	SUPERFAMILY:53633
Panther (EcoliWiki Page)	PTHR21499:SF20
Superfamily (EcoliWiki Page)	SUPERFAMILY:55021
Superfamily (EcoliWiki Page)	SUPERFAMILY:55021
EcoCyc	EcoCyc:EG10550	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10550	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000543	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0545	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013156	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

References

[back to top]

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 ^4.2 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).

lysC: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 lysC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search