icd:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

icd

Gene Synonym(s)

ECK1122, b1136, JW1122, icdA, icdE, icdR[1]

Product Desc.

Icd[2][3];

Component of isocitrate dehydrogenase[2][3]

Isocitrate dehydrogenase, NADP+-specific; e14 attachment site[4]

Product Synonyms(s)

e14 prophage; isocitrate dehydrogenase, specific for NADP+[1], B1136[2][1], Icd[2][1], IcdE[2][1], IcdA[2][1] , ECK1122, icdA, icdE, JW1122, b1136

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): icd[2], OP00148

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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This icd allele has a C-terminus added during prophage e14 integration at codon 362, introducing 2 amino acid changes in icd. icdC encodes the original C-terminus of icd. Binds TrxA (Kumar, 2004).[4]



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

icd

Mnemonic

isocitrate dehydrogenase Isocitrate dehydrogenase

Synonyms

ECK1122, b1136, JW1122, icdA, icdE, icdR[1]

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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

25.74 minutes 

MG1655: 1194346..1195596
<gbrowseImage> name=NC_000913:1194346..1195596 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1210492..1211742
<gbrowseImage> name=NC_012967:1210492..1211742 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1098271..1099521
<gbrowseImage> name=NC_012759:1098271..1099521 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1196700..1197950
<gbrowseImage> name=NC_007779:1196700..1197950 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1249791..1251041
<gbrowseImage> name=NC_010473:1249791..1251041 source=DH10B preset=GeneLocation </gbrowseImage>

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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

1194346

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) Phenotype: Type Phenotype: Description Reference Availability Comments

Δicd (Keio:JW1122)

deletion

deletion

PMID:16738554

Shigen
CGSC9051[5]

icdY160F

Y160F

Large decrease in activity and a small increase in substrate affinity

seeded from UniProt:P08200

icdS113D,E

S113D,E

Reduced affinity for isocitrate

seeded from UniProt:P08200

icdK230M

K230M

Decrease in activity and substrate affinity

seeded from UniProt:P08200

ΔicdA::kan

deletion

Biolog:respiration

unable to respire L-Fucose

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Galactose

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Mannose

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire b-Methyl-D-glucoside

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Sorbitol

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire DL-a-Glycerol

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Galactoniate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Galacturonate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Gluconate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Glucuronate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire DL-Lactate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire Succinate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire L-Alanyl-glycine

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire L-Asparagine

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire L-Aspartate

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire D-Serine

PMID:16095938

ΔicdA::kan

deletion

Biolog:respiration

unable to respire L-Serine

PMID:16095938

any isocitrate dehydrogenase-deficient mutant

"Cultures of isocitrate dehydrogenase-deficient (icd) mutants were overgrown by double mutants (icd glt) lacking citrate synthase activity also. The icd mutants grew more slowly than wild-type cells or the double mutants because they accumulated an inhibitory metabolite (possibly citrate)."

PMID:776950

any isocitrate dehydrogenase-deficient mutant

Resistant to

Resistant to low levels of nalidixic acid

PMID:776950 PMID:4926678

icd-11

CGSC:8552

icd-3

CGSC:11088

Δicd-724::kan

PMID:16738554

CGSC:101520


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Notes

Genetic Interactions

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<protect>

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

JW1122

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGAAAGTAAAGTAGTTGTTCC

Primer 2:CCCATGTTTTCGATGATCGCGTC

7F9

Kohara Phage

Genobase

PMID:3038334

2E7

Kohara Phage

Genobase

PMID:3038334

zce-726::Tn10

Linked marker

CAG12078 = CGSC7361[5]

est. P1 cotransduction: 19% [6]

zcf-117::Tn10

Linked marker

CAG18463 = CGSC7363[5]

est. P1 cotransduction: 55% [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:EG10489

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10489

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000482

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945702

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0484

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003823

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Icd

Synonyms

e14 prophage; isocitrate dehydrogenase, specific for NADP+[1], B1136[2][1], Icd[2][1], IcdE[2][1], IcdA[2][1] , ECK1122, icdA, icdE, JW1122, b1136

Product description

Icd[2][3];

Component of isocitrate dehydrogenase[2][3]

Isocitrate dehydrogenase, NADP+-specific; e14 attachment site[4]

EC number (for enzymes)
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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: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:0004450

isocitrate dehydrogenase (NADP+) activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004439

F

Seeded from EcoCyc (v14.0)

complete

GO:0004450

isocitrate dehydrogenase (NADP+) activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.1.1.42

F

Seeded from EcoCyc (v14.0)

complete

GO:0006099

tricarboxylic acid cycle

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004439

P

Seeded from EcoCyc (v14.0)

complete

GO:0006099

tricarboxylic acid cycle

PMID:4932752

IDA: Inferred from Direct Assay

P

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0016616

oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001804

F

Seeded from EcoCyc (v14.0)

complete

GO:0016616

oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019818

F

Seeded from EcoCyc (v14.0)

complete

GO:0022900

electron transport chain

PMID:776950 PMID:15221231

IMP: Inferred from Mutant Phenotype

P

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:IPR004439

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:0004450

isocitrate dehydrogenase (NADP+) activity

PMID 3112144

IDA: Inferred from Direct Assay

F

Missing: reference

GO:0005737

cytoplasm

PMID:34215

IDA: Inferred from Direct Assay

C

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

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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 dehydrogenase

could be indirect

Protein

yneG

PMID:16606699

Experiment(s):EBI-1138992

Protein

yibL

PMID:16606699

Experiment(s):EBI-1138992

Protein

yfdS

PMID:16606699

Experiment(s):EBI-1138992

Protein

nadE

PMID:16606699

Experiment(s):EBI-1138992
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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 

MESKVVVPAQ GKKITLQNGK LNVPENPIIP YIEGDGIGVD VTPAMLKVVD AAVEKAYKGE
RKISWMEIYT GEKSTQVYGQ DVWLPAETLD LIREYRVAIK GPLTTPVGGG IRSLNVALRQ
ELDLYICLRP VRYYQGTPSP VKHPELTDMV IFRENSEDIY AGIEWKADSA DAEKVIKFLR
EEMGVKKIRF PEHCGIGIKP CSEEGTKRLV RAAIEYAIAN DRDSVTLVHK GNIMKFTEGA
FKDWGYQLAR EEFGGELIDG GPWLKVKNPN TGKEIVIKDV IADAFLQQIL LRPAEYDVIA
CMNLNGDYIS DALAAQVGGI GIAPGANIGD ECALFEATHG TAPKYAGQDK VNPGSIILSA
EMMLRHMGWT EAADLIVKGM EGAINAKTVT YDFERLMDGA KLLKCSEFGD AIIENM
Length

416

Mol. Wt

45.757 kDa

pI

5.0 (calculated)

Extinction coefficient

55,350 - 56,100 (calc based on 15 Y, 6 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

Modification Site

113

phosphorylation site at S113

probability greater than 75%

PMID:17938405

Domain

28..412

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=icd 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:16129099

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945702

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003823

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P08200

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10489

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10489

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945702

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000482

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0484

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

8.19E+03

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

29482

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

38899

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

24020

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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<protect>

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

Transcription unit(s)

icd

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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_000913:1194326..1194366 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

</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

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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:b1136 (EcoliWiki Page)

NCBI GEO profiles for icd

microarray

GenExpDB:b1136 (EcoliWiki Page)

Summary of data for icd 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 (1194060..1194390) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ01; Well:H11[7]

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Notes

Accessions Related to icd Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10489

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0484

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1136

EcoGene

EcoGene:EG10489

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000482

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003823

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

  • ENSANGP00000010852 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000010336 (score: 0.188)
  • ENSANGP00000013512 (score: 0.184)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000009539 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G03290 (score: 1.000; bootstrap: 100%)
  • AT3G09810 (score: 0.853)
  • AT4G35260 (score: 0.298)
  • AT4G35650 (score: 0.276)
  • AT2G17130 (score: 0.272)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000008177 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000025044 (score: 0.197)
  • ENSBTAP00000030212 (score: 0.139)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00033447 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00009664 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000020880 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000009923 (score: 0.189)
  • ENSCAFP00000028461 (score: 0.182)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000014956 (score: 1.000; bootstrap: 100%)
  • ENSCINP00000015369 (score: 0.215)
  • ENSCINP00000009119 (score: 0.176)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040426-1007 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-1938 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-3548 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040625-252 (score: 0.205)
  • ZDB-GENE-040625-174 (score: 0.205)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0231288 (score: 1.000; bootstrap: 100%)
  • DDB0231294 (score: 0.363)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0027291 (score: 1.000; bootstrap: 100%)
  • FBgn0052026 (score: 0.467)
  • FBgn0038922 (score: 0.182)
  • FBgn0035005 (score: 0.148)
  • FBgn0039358 (score: 0.148)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA11495-PA (score: 1.000; bootstrap: 100%)
  • GA16620-PA (score: 0.500)
  • GA19594-PA (score: 0.212)
  • GA17474-PA (score: 0.175)
  • GA18606-PA (score: 0.169)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000005224 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000023363 (score: 0.052)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000299518 (score: 1.000; bootstrap: 100%)
  • ENSP00000245969 (score: 0.188)
  • ENSP00000217901 (score: 0.184)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000014584 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000010659 (score: 0.179)
  • ENSMODP00000006416 (score: 0.149)

From Inparanoid:20070104

Mus musculus

  • MGI:1915084 (score: 1.000; bootstrap: 100%)
  • MGI:2158650 (score: 0.192)
  • MGI:1099463 (score: 0.181)
  • MGI:2142174 (score: 0.133)

From Inparanoid:20070104

Oryza gramene

  • Q6ZI55 (score: 1.000; bootstrap: 100%)
  • Q7XK23 (score: 0.817)
  • Q5U8V3 (score: 0.563)
  • Q9SDG5 (score: 0.294)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000012542 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000022566 (score: 0.197)
  • ENSPTRP00000038951 (score: 0.106)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000015102 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000009681 (score: 0.196)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YOR136W (score: 1.000; bootstrap: 100%)
  • YNL037C (score: 0.198)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC9025c (score: 1.000; bootstrap: 100%)
  • SPAC11G73 (score: 0.206)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000129247 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000168718 (score: 0.222)
  • NEWSINFRUP00000161887 (score: 0.198)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00015984001 (score: 1.000; bootstrap: 100%)
  • GSTENP00028116001 (score: 0.175)
  • GSTENP00020960001 (score: 0.166)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000021703 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

ICDA

From SHIGELLACYC

E. coli O157

ICDA

From ECOO157CYC

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Do-It-Yourself Web Tools

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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:SF18

Superfamily (EcoliWiki Page)

SUPERFAMILY:53659

PFAM (EcoliWiki Page)

PFAM:PF00180

EcoCyc

EcoCyc:EG10489

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10489

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000482

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0484

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003823

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 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. ↑ 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. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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