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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	leuB
Gene Synonym(s)	ECK0075, b0073, JW5807^[1], JW5807
Product Desc.	LeuB^[2]^[3]; Component of 3-isopropylmalate dehydrogenase^[2]^[3] beta-Isopropylmalate dehydrogenase^[4]
Product Synonyms(s)	3-isopropylmalate dehydrogenase^[1], B0073^[2]^[1], LeuB^[2]^[1] , ECK0075, JW5807, b0073
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): leuLABCD^[2], OP00249, leu, leuABCD
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	leuB
Mnemonic	Leucine (biosynthesis)
Synonyms	ECK0075, b0073, JW5807^[1], JW5807
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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	1.74 minutes	MG1655: 81958..80867 <gbrowseImage> name=NC_000913:80867..81958 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 84762..83671 <gbrowseImage> name=NC_012967:83671..84762 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 80866..81957 <gbrowseImage> name=NC_012759:80866..81957 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 81958..80867 <gbrowseImage> name=NC_007779:80867..81958 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
Coding Start (SO:0000323)	MG1655	80870	Edman degradation	PMID:9298646
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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	Comments
leuB(del) (Keio:JW5807)	deletion	deletion	PMID:16738554	Shigen
leuB6(Am)			PMID:6224549	CGSC:4494	amber (UAG) mutation
leuB401				CGSC:6568
leuB61				CGSC:6570
leuB19				CGSC:8331
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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
JW5807	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCGAAGAATTACCATATTGC Primer 2:CCaACCCCTTCTGCTACATAGCG
8H11	Kohara Phage	Genobase	PMID:3038334
6C1	Kohara Phage	Genobase	PMID:3038334
carB96::Tn10	Linked marker	CAG12093 = CGSC7322^[5]	est. P1 cotransduction: 11% ^[6] Synonyms:car-96::Tn10
leuO3051::Tn10	Linked marker	CAG12095 = CGSC7324^[5]	est. P1 cotransduction: 92% ^[6] Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).
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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:EG11577	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11577	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001529	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:944798	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1537	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000265	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	LeuB
Synonyms	3-isopropylmalate dehydrogenase^[1], B0073^[2]^[1], LeuB^[2]^[1] , ECK0075, JW5807, b0073
Product description	LeuB^[2]^[3]; Component of 3-isopropylmalate dehydrogenase^[2]^[3] beta-Isopropylmalate dehydrogenase^[4]
EC number (for enzymes)	1.1.1.85^[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:0003862	3-isopropylmalate dehydrogenase activity	PMID:9003442	IDA: Inferred from Direct Assay		F		complete
	GO:0034198	cellular response to amino acid starvation	PMID:10220423 PMID:15133107	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0000287	magnesium ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001804	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000287	magnesium ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR019818	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000287	magnesium ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0460	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003862	3-isopropylmalate dehydrogenase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01033	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003862	3-isopropylmalate dehydrogenase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004429	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003862	3-isopropylmalate dehydrogenase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:1.1.1.85	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01033	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004429	C	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:0009098	leucine biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01033	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009098	leucine biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004429	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009098	leucine biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0432	P	Seeded from EcoCyc (v14.0)	complete
	GO:0030145	manganese ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0464	F	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051287	NAD or NADH binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001804	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051287	NAD or NADH binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR019818	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001804	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004429	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR019818	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0560	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009098	leucine biosynthetic process	PMID:4570778	IMP: Inferred from Mutant Phenotype		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 3-isopropylmalate dehydrogenase	could be indirect
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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 MMSKNYHIAV LPGDGIGPEV MTQALKVLDA VRNRFAMRIT TSHYDVGGAA IDNHGQPLPP ATVEGCEQAD AVLFGSVGGP KWEHLPPDQQ PERGALLPLR KHFKLFSNLR PAKLYQGLEA FCPLRADIAA NGFDILCVRE LTGGIYFGQP KGREGSGQYE KAFDTEVYHR FEIERIARIA FESARKRRHK VTSIDKANVL QSSILWREIV NEIATEYPDV ELAHMYIDNA TMQLIKDPSQ FDVLLCSNLF GDILSDECAM ITGSMGMLPS ASLNEQGFGL YEPAGGSAPD IAGKNIANPI AQILSLALLL RYSLDADDAA CAIERAINRA LEEGIRTGDL ARGAAAVSTD EMGDIIARYV AEGV
Length	364
Mol. Wt	39.649 kDa
pI	5.0 (calculated)
Extinction coefficient	27,390 - 28,140 (calc based on 11 Y, 2 W, and 6 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
Initiator Methionine	1	Removed	UniProt:P30125
Domain	6..355	PF00180 Isocitrate/isopropylmalate dehydrogenase		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=leuB 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:90111082	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:944798	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000265	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P30125	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11577	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11577	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:944798	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001529	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1537	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	5.30E+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 EMG2	400	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: Ml07-l	PMID: 9298646
Protein	E. coli K-12 MG1655	662	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	3334	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	1078	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)
leuLABCD
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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_000913:81938..81978 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:b0073 (EcoliWiki Page)	NCBI GEO profiles for leuB
microarray	GenExpDB:b0073 (EcoliWiki Page)	Summary of data for leuB 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 leuB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11577	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1537	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0073
EcoGene	EcoGene:EG11577	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001529	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000265	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	AT1G80560 (score: 1.000; bootstrap: 100%) AT1G31180 (score: 0.761) AT5G14200 (score: 0.756)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00036287 (score: 1.000; bootstrap: 100%) WBGene00026699 (score: 0.257) WBGene00037537 (score: 0.253)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00007993 (score: 1.000; bootstrap: 100%) WBGene00016266 (score: 0.262) WBGene00009440 (score: 0.252)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000015535 (score: 1.000; bootstrap: 100%) ENSMMUP00000028091 (score: 0.212)	From Inparanoid:20070104
Oryza gramene	Q6AT60 (score: 1.000; bootstrap: 100%) Q7Y096 (score: 0.994)	From Inparanoid:20070104
Saccharomyces cerevisiae	YCL018W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC1A42c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000014804 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Shigella flexneri	LEUB	From SHIGELLACYC
E. coli O157	LEUB	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)	PF00180 Isocitrate/isopropylmalate dehydrogenase
Panther (EcoliWiki Page)	PTHR11835:SF13
Superfamily (EcoliWiki Page)	SUPERFAMILY:53659
EcoCyc	EcoCyc:EG11577	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11577	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001529	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1537	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000265	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 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 ^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).

leuB: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 leuB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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