fadD: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

fadD

Gene Synonym(s)

ECK1803, b1805, JW1794, oldD[1], oldD

Product Desc.

FadD[2][3];

Component of fatty acyl-CoA synthetase[2][3]

Acyl-CoA synthase[4]

Product Synonyms(s)

acyl-CoA synthetase (long-chain-fatty-acid--CoA ligase)[1], B1805[2][1], OldD[2][1], FadD[2][1] , ECK1803, JW1794, oldD, b1805

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): fadD[2]

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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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

fadD

Mnemonic

Fatty acid degradation

Synonyms

ECK1803, b1805, JW1794, oldD[1], oldD

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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

40.65 minutes 

MG1655: 1887770..1886085
<gbrowseImage> name=NC_000913:1886085..1887770 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1868324..1866639
<gbrowseImage> name=NC_012967:1866639..1868324 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1778144..1779829
<gbrowseImage> name=NC_012759:1778144..1779829 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1891460..1889775
<gbrowseImage> name=NC_007779:1889775..1891460 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1978341..1976656
<gbrowseImage> name=NC_010473:1976656..1978341 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

1886085

Edman degradation

PMID:1460045


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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

ΔfadD (Keio:JW1794)

deletion

deletion

PMID:16738554

Shigen
CGSC9503[5]

fadD::Tn5KAN-2 (FB20456)

Insertion at nt 1075 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20456

contains pKD46

fadDY213A

Y213A

Loss of activity

seeded from UniProt:P69451

fadDT214A

T214A

10% of wild-type activity

seeded from UniProt:P69451

fadDG216A

G216A

Decreases activity

seeded from UniProt:P69451

fadDT217A

T217A

Decreases activity

seeded from UniProt:P69451

fadDG219A

G219A

Decreases activity

seeded from UniProt:P69451

fadDK222A

K222A

Decreases activity

seeded from UniProt:P69451

fadDE361A

E361A

Loss of activity

seeded from UniProt:P69451

fadD88

CGSC:5652

fadD1

CGSC:15953

fadD0

CGSC:19391

ΔfadD730::kan

PMID:16738554

CGSC:100780


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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

JW1794

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAGAAGGTTTGGCTTAACCG

Primer 2:CCGGCTTTATTGTCCACTTTGCC

7F2

Kohara Phage

Genobase

PMID:3038334

6D1

Kohara Phage

Genobase

PMID:3038334

12B3

Kohara Phage

Genobase

PMID:3038334

zea-225::Tn10

Linked marker

CAG18465 = CGSC7388[5]

est. P1 cotransduction: 56% [6]
Synonyms:zdj-225::Tn10

eda-51::Tn10

Linked marker

CAG18486 = CGSC7392[5]

est. P1 cotransduction: 15% [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:EG11530

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11530

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001484

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946327

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1492

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006005

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

FadD

Synonyms

acyl-CoA synthetase (long-chain-fatty-acid--CoA ligase)[1], B1805[2][1], OldD[2][1], FadD[2][1] , ECK1803, JW1794, oldD, b1805

Product description

FadD[2][3];

Component of fatty acyl-CoA synthetase[2][3]

Acyl-CoA synthase[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: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:0004467

long-chain fatty acid-CoA ligase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:6.2.1.3

F

Seeded from EcoCyc (v14.0)

complete

GO:0004467

long-chain fatty acid-CoA ligase activity

PMID:7016858

IDA: Inferred from Direct Assay

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:0005829

cytosol

PMID:12034706

TAS: Traceable Author Statement

C

Seeded from EcoCyc (v14.0)

complete

GO:0006635

fatty acid beta-oxidation

PMID:7016858

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0006637

acyl-CoA metabolic process

PMID:7016858

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc (v14.0)

complete

GO:0009898

internal side of plasma membrane

PMID:12034706

TAS: Traceable Author Statement

C

Seeded from EcoCyc (v14.0)

complete

GO:0019898

extrinsic to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9903

C

Seeded from EcoCyc (v14.0)

complete

GO:0004467

long-chain fatty acid-CoA ligase activity

PMID:1460045

IMP: Inferred from Mutant Phenotype

F

complete

GO:0006631

fatty acid metabolic process

PMID:1649829

IMP: Inferred from Mutant Phenotype

P

complete

GO:0008654

phospholipid biosynthetic process

PMID:1649829

IMP: Inferred from Mutant Phenotype

P

complete

GO:0006629

lipid metabolic process

PMID:1649829

IMP: Inferred from Mutant Phenotype

P

complete

GO:0005504

fatty acid binding

PMID:9030548

IMP: Inferred from Mutant Phenotype

F

complete

GO:0004467

long-chain fatty acid-CoA ligase activity

PMID:9030548

IMP: Inferred from Mutant Phenotype

F

complete

GO:0070538

oleic acid binding

PMID:9030548

IMP: Inferred from Mutant Phenotype

F

complete

GO:0005737

cytoplasm

PMID:9030548

IDA: Inferred from Direct Assay

C

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 fatty acyl-CoA synthetase

could be indirect

Protein

cysI

PMID:16606699

Experiment(s):EBI-1140873

Protein

hyaB

PMID:16606699

Experiment(s):EBI-1140873

Protein

mnmG

PMID:16606699

Experiment(s):EBI-1140873

Protein

insL1

PMID:16606699

Experiment(s):EBI-1140873, EBI-1140873

Protein

groL

PMID:16606699

Experiment(s):EBI-1140873

Protein

sdhA

PMID:16606699

Experiment(s):EBI-1140873
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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 

MKKVWLNRYP ADVPTEINPD RYQSLVDMFE QSVARYADQP AFVNMGEVMT FRKLEERSRA
FAAYLQQGLG LKKGDRVALM MPNLLQYPVA LFGILRAGMI VVNVNPLYTP RELEHQLNDS
GASAIVIVSN FAHTLEKVVD KTAVQHVILT RMGDQLSTAK GTVVNFVVKY IKRLVPKYHL
PDAISFRSAL HNGYRMQYVK PELVPEDLAF LQYTGGTTGV AKGAMLTHRN MLANLEQVNA
TYGPLLHPGK ELVVTALPLY HIFALTINCL LFIELGGQNL LITNPRDIPG LVKELAKYPF
TAITGVNTLF NALLNNKEFQ QLDFSSLHLS AGGGMPVQQV VAERWVKLTG QYLLEGYGLT
ECAPLVSVNP YDIDYHSGSI GLPVPSTEAK LVDDDDNEVP PGQPGELCVK GPQVMLGYWQ
RPDATDEIIK NGWLHTGDIA VMDEEGFLRI VDRKKDMILV SGFNVYPNEI EDVVMQHPGV
QEVAAVGVPS GSSGEAVKIF VVKKDPSLTE ESLVTFCRRQ LTGYKVPKLV EFRDELPKSN
VGKILRRELR DEARGKVDNK A
Length

561

Mol. Wt

62.331 kDa

pI

6.7 (calculated)

Extinction coefficient

53,290 - 53,790 (calc based on 21 Y, 4 W, and 4 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

Domain

50..485

PF00501 AMP-binding enzyme

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=fadD 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:16129759

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946327

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006005

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P69451

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11530

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11530

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946327

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001484

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1492

Escherichia coli str. K-12 substr. MG1655

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Notes

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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 MG1655

682

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

114

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

243

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)

fadD

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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_000913:1887750..1887790 source=MG1655 flip=1 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:b1805 (EcoliWiki Page)

NCBI GEO profiles for fadD

microarray

GenExpDB:b1805 (EcoliWiki Page)

Summary of data for fadD 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 fadD Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11530

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1492

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1805

EcoGene

EcoGene:EG11530

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001484

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006005

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

  • ENSANGP00000010831 (score: 1.000; bootstrap: 98%)
  • ENSANGP00000028839 (score: 0.077)
  • ENSANGP00000003832 (score: 0.051)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000004528 (score: 1.000; bootstrap: 89%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT3G21240 (score: 1.000; bootstrap: 75%)
  • AT1G51680 (score: 0.766)
  • AT3G21230 (score: 0.568)
  • AT1G65060 (score: 0.528)
  • AT4G05160 (score: 0.207)
  • AT1G62940 (score: 0.191)
  • AT5G63380 (score: 0.136)
  • AT1G20480 (score: 0.134)
  • AT1G20510 (score: 0.132)
  • AT4G19010 (score: 0.125)
  • AT5G38120 (score: 0.115)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000028385 (score: 1.000; bootstrap: 87%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00038536 (score: 1.000; bootstrap: 70%)
  • WBGene00038969 (score: 0.162)
  • WBGene00038149 (score: 0.160)
  • WBGene00024202 (score: 0.070)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00008669 (score: 1.000; bootstrap: 74%)
  • WBGene00007082 (score: 0.150)
  • WBGene00022849 (score: 0.147)
  • WBGene00007228 (score: 0.051)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000025110 (score: 1.000; bootstrap: 85%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000018792 (score: 1.000; bootstrap: 91%)
  • ENSCINP00000013265 (score: 0.276)
  • ENSCINP00000013885 (score: 0.086)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040912-169 (score: 1.000; bootstrap: 92%)
  • ZDB-CDNA-040912-171 (score: 1.000; bootstrap: 93%)
  • ZDB-CDNA-050809-17 (score: 0.614)
  • ZDB-GENE-050809-115 (score: 0.614)
  • ZDB-CDNA-040801-96 (score: 0.576)
  • ZDB-GENE-040801-88 (score: 0.576)
  • ZDB-CDNA-040425-2499 (score: 0.133)
  • ZDB-GENE-040426-1565 (score: 0.133)
  • ZDB-GENE-030131-6493 (score: 0.122)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0186164 (score: 1.000; bootstrap: 89%)
  • DDB0231737 (score: 0.737)
  • DDB0231736 (score: 0.719)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0027601 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA21474-PA (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Oryza gramene

  • Q6YUH6 (score: 1.000; bootstrap: 98%)
  • Q42982 (score: 0.967)
  • Q9M7S3 (score: 0.803)
  • Q6Q297 (score: 0.499)
  • Q9M7S2 (score: 0.498)
  • Q67W82 (score: 0.494)
  • Q6ETN3 (score: 0.491)
  • Q6ZAC1 (score: 0.486)
  • Q6ZKV9 (score: 0.467)
  • P17814 (score: 0.459)
  • Q9M7S1 (score: 0.459)
  • Q41288 (score: 0.292)
  • Q67W81 (score: 0.262)
  • Q7XXL2 (score: 0.159)
  • Q8LSQ3 (score: 0.122)
  • Q5N6Y8 (score: 0.118)
  • Q7F1X5 (score: 0.088)
  • Q6YYZ2 (score: 0.076)
  • Q9FRQ0 (score: 0.069)
  • Q7XBT5 (score: 0.069)
  • Q8RU95 (score: 0.068)
  • Q69RG7 (score: 0.059)
  • Q70CS8 (score: 0.052)
  • Q8GVF9 (score: 0.052)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000004673 (score: 1.000; bootstrap: 91%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000158363 (score: 1.000; bootstrap: 94%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000036644 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

FADD

From SHIGELLACYC

E. coli O157

FADD

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)

PF00501 AMP-binding enzyme

Panther (EcoliWiki Page)

PTHR24096:SF44

Superfamily (EcoliWiki Page)

SUPERFAMILY:56801

EcoCyc

EcoCyc:EG11530

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11530

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001484

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1492

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006005

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 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 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 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).

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