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Standard Name	ilvD
Gene Synonym(s)	ECK3763, b3771, JW5605^[1], JW5605
Product Desc.	IlvD^[2]^[3]; Component of DIHYDROXYACIDDEHYDRAT-CPLX^[2] Dihydroxyacid dehydratase; homodimeric^[4]
Product Synonyms(s)	dihydroxyacid dehydratase^[1], B3771^[2]^[1], IlvD^[2]^[1] , ECK3763, JW5605, b3771
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ilvEDA^[2], ilvLG_1G_2MEDA^[2], ilvLGGMEDA, ilvLGMEDA, ilvGMEDA
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	ilvD
Mnemonic	Isoleucine-valine (requirement)
Synonyms	ECK3763, b3771, JW5605^[1], JW5605
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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	85.17 minutes	MG1655: 3951501..3953351 <gbrowseImage> name=NC_000913:3951501..3953351 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3915280..3917130 <gbrowseImage> name=NC_012967:3915280..3917130 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3841170..3843020 <gbrowseImage> name=NC_012759:3841170..3843020 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3683203..3681353 <gbrowseImage> name=NC_007779:3681353..3683203 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	3951504	Edman degradation	PMID:8325851
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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
ilvD(del) (Keio:JW5605)	deletion	deletion	PMID:16738554	Shigen CGSC11483^[5]
ilvD::Tn5KAN-I-SceI (FB21444)	Insertion at nt 535 in Minus orientation		PMID:15262929	E. coli Genome Project:FB21444	contains pKD46
ilvD::Tn5KAN-I-SceI (FB21445)	Insertion at nt 535 in Minus orientation		PMID:15262929	E. coli Genome Project:FB21445	does not contain pKD46
ilvD500::Tn10	Insertion at 3,952,563 bp in MG1655 (NC_000913)		adapted from Nichols et al.^[6]	CAG18431 = CGSC7462^[5]	Synonyms: ilv500::Tn10
ilvD105				CGSC:4840
ilvD188(Oc)			PMID:4892370	CGSC:5021	ochre (UAA) mutation
ilvD16				CGSC:6562
ilvD132				CGSC:8350
ilvD130				CGSC:9305
ilvD145				CGSC:9319
ilvD691::Tn10				CGSC:10187
ilvD0				CGSC:10761
ilvD75				CGSC:13179
ilvD87				CGSC:13409
ilvD138				CGSC:13553
ilvD144				CGSC:13562
ilvD88				CGSC:13569
ilvD185				CGSC:13572
ilvD106				CGSC:17160
ilvD139				CGSC:17165
ilvD500::Tn10				CGSC:39180
ilvD3164::Tn10kan			PMID:2540407 PMID:9829956	CGSC:40339
ilvD493				CGSC:73773
ilvD722(del)::kan			PMID:16738554	CGSC:101548
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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
JW5605	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCCTAAGTACCGTTCCGCCAC Primer 2:CCACCCCCCAGTTTCGATTTATC
2A8	Kohara Phage	Genobase	PMID:3038334
2E6	Kohara Phage	Genobase	PMID:3038334
15D10	Kohara Phage	Genobase	PMID:3038334
rbsD296::Tn10	Linked marker	CAG18501 = CGSC7460^[5]	est. P1 cotransduction: 45% ^[6] Synonyms:zie-296::Tn10
metEo-3079::Tn10	Linked marker	CAG18491 = CGSC7464^[5]	est. P1 cotransduction: 6% ^[6] Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.
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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:EG10496	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10496	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000489	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948277	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0491	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012318	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	IlvD
Synonyms	dihydroxyacid dehydratase^[1], B3771^[2]^[1], IlvD^[2]^[1] , ECK3763, JW5605, b3771
Product description	IlvD^[2]^[3]; Component of DIHYDROXYACIDDEHYDRAT-CPLX^[2] Dihydroxyacid dehydratase; homodimeric^[4]
EC number (for enzymes)	4.2.1.9^[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:0004160	dihydroxy-acid dehydratase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00012	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004160	dihydroxy-acid dehydratase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004404	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004160	dihydroxy-acid dehydratase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.2.1.9	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:0009097	isoleucine biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00012	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009099	valine biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00012	P	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:0051536	iron-sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0411	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0004	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 DIHYDROXYACIDDEHYDRAT-CPLX	could be indirect
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Notes

Localization

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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 MPKYRSATTT HGRNMAGARA LWRATGMTDA DFGKPIIAVV NSFTQFVPGH VHLRDLGKLV AEQIEAAGGV AKEFNTIAVD DGIAMGHGGM LYSLPSRELI ADSVEYMVNA HCADAMVCIS NCDKITPGML MASLRLNIPV IFVSGGPMEA GKTKLSDQII KLDLVDAMIQ GADPKVSDSQ SDQVERSACP TCGSCSGMFT ANSMNCLTEA LGLSQPGNGS LLATHADRKQ LFLNAGKRIV ELTKRYYEQN DESALPRNIA SKAAFENAMT LDIAMGGSTN TVLHLLAAAQ EAEIDFTMSD IDKLSRKVPQ LCKVAPSTQK YHMEDVHRAG GVIGILGELD RAGLLNRDVK NVLGLTLPQT LEQYDVMLTQ DDAVKNMFRA GPAGIRTTQA FSQDCRWDTL DDDRANGCIR SLEHAYSKDG GLAVLYGNFA ENGCIVKTAG VDDSILKFTG PAKVYESQDD AVEAILGGKV VAGDVVVIRY EGPKGGPGMQ EMLYPTSFLK SMGLGKACAL ITDGRFSGGT SGLSIGHVSP EAASGGSIGL IEDGDLIAID IPNRGIQLQV SDAELAARRE AQDARGDKAW TPKNRERQVS FALRAYASLA TSADKGAVRD KSKLGG
Length	616
Mol. Wt	65.532 kDa
pI	5.7 (calculated)
Extinction coefficient	35,870 - 37,370 (calc based on 13 Y, 3 W, and 12 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:P05791
Domain	34..607	PF00920 Dehydratase 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=ilvD 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:49176404	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948277	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012318	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P05791	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10496	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10496	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948277	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000489	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0491	Escherichia coli str. K-12 substr. MG1655
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Notes

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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	1.17E+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	17.82+/-0.185	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.038918919	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	579	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	675	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	738	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)
ilvEDA
ilvLG_1G_2MEDA
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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_000913:3951481..3951521 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:b3771 (EcoliWiki Page)	NCBI GEO profiles for ilvD
microarray	GenExpDB:b3771 (EcoliWiki Page)	Summary of data for ilvD 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 (3950953..3951133) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ12; Well:H3^[7]
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Notes

Accessions Related to ilvD Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10496	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0491	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3771
EcoGene	EcoGene:EG10496	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000489	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012318	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
Shigella flexneri	ILVD	From SHIGELLACYC
E. coli O157	ILVD	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)	PF00920 Dehydratase family
Superfamily (EcoliWiki Page)	SUPERFAMILY:52016
Superfamily (EcoliWiki Page)	SUPERFAMILY:143975
EcoCyc	EcoCyc:EG10496	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10496	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000489	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0491	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012318	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 ^1.9 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 ^2.9 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 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 ^5.3 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 ^6.2 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

ilvD: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 ilvD Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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