fadA: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

fadA

Gene Synonym(s)

ECK3837, b3845, JW5578, oldA[1], oldA

Product Desc.

3-ketoacyl-CoA thiolase[2][3];

Component of fatty acid oxidation complex, β component[2][3]; fatty acid oxidation complex[2][3]

Thiolase of fatty acid oxidation complex FadAB; 3-ketoacyl-CoA thiolase[4]

Product Synonyms(s)

3-ketoacyl-CoA thiolase (thiolase I)[1], B3845[2][1], OldA[2][1], FadA[2][1] , ECK3837, JW5578, oldA, b3845

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): fadBA[2], OP00303

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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FadR regulon. FadAB and FadIJ are paralogs.[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

fadA

Mnemonic

Fatty acid degradation

Synonyms

ECK3837, b3845, JW5578, oldA[1], oldA

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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

86.77 minutes, 86.77 minutes 

MG1655: 4026795..4025632
<gbrowseImage> name=NC_000913:4025632..4026795 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4007145..4005982
<gbrowseImage> name=NC_012967:4005982..4007145 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3915301..3916464
<gbrowseImage> name=NC_012759:3915301..3916464 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3607909..3609072
<gbrowseImage> name=NC_007779:3607909..3609072 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4125715..4124552
<gbrowseImage> name=NC_010473:4124552..4125715 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

4025632

Edman degradation

PMID:2191949


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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

ΔfadA (Keio:JW5578)

deletion

deletion

PMID:16738554

Shigen

fad-751::Tn10

Insertion at 4,025,841 bp in MG1655 (NC_000913)

adapted from Nichols et al.[5]

CAG18496 = CGSC7465[6]

Synonyms: fadAB101::Tn10

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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

JW5578

Plasmid clone

Shigen

PMID:16769691

Status:cloned as old JW

Primer 1:GCCGAACAGGTTGTCATTGTCGA

Primer 2:CCAACCCGCTCAAACACCGTCGC

9B11

Kohara Phage

Genobase

PMID:3038334

16G1

Kohara Phage

Genobase

PMID:3038334

metEo-3079::Tn10

Linked marker

CAG18491 = CGSC7464[6]

est. P1 cotransduction: 55% [5]
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

zih-35::Tn10

Linked marker

CAG18495 = CGSC7467[6]

est. P1 cotransduction: 20% [5]

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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:EG10278

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10278

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000272

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948324

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0274

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012562

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

FadA

Synonyms

3-ketoacyl-CoA thiolase (thiolase I)[1], B3845[2][1], OldA[2][1], FadA[2][1] , ECK3837, JW5578, oldA, b3845

Product description

3-ketoacyl-CoA thiolase[2][3];

Component of fatty acid oxidation complex, β component[2][3]; fatty acid oxidation complex[2][3]

Thiolase of fatty acid oxidation complex FadAB; 3-ketoacyl-CoA thiolase[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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016038

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016039

F

Seeded from EcoCyc (v14.0)

complete

GO:0003988

acetyl-CoA C-acyltransferase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01620

F

Seeded from EcoCyc (v14.0)

complete

GO:0003988

acetyl-CoA C-acyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012805

F

Seeded from EcoCyc (v14.0)

complete

GO:0003988

acetyl-CoA C-acyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.3.1.16

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01620

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012805

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:0006629

lipid metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0443

P

Seeded from EcoCyc (v14.0)

complete

GO:0006631

fatty acid metabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01620

P

Seeded from EcoCyc (v14.0)

complete

GO:0006631

fatty acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012805

P

Seeded from EcoCyc (v14.0)

complete

GO:0006631

fatty acid metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0276

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002155

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016038

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016039

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020610

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020613

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020615

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020616

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020617

P

Seeded from EcoCyc (v14.0)

complete

GO:0008415

acyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0012

F

Seeded from EcoCyc (v14.0)

complete

GO:0016042

lipid catabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01620

P

Seeded from EcoCyc (v14.0)

complete

GO:0016042

lipid catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012805

P

Seeded from EcoCyc (v14.0)

complete

GO:0016042

lipid catabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0442

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016747

transferase activity, transferring acyl groups other than amino-acyl groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002155

F

Seeded from EcoCyc (v14.0)

complete

GO:0016747

transferase activity, transferring acyl groups other than amino-acyl groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020610

F

Seeded from EcoCyc (v14.0)

complete

GO:0016747

transferase activity, transferring acyl groups other than amino-acyl groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020613

F

Seeded from EcoCyc (v14.0)

complete

GO:0016747

transferase activity, transferring acyl groups other than amino-acyl groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020615

F

Seeded from EcoCyc (v14.0)

complete

GO:0016747

transferase activity, transferring acyl groups other than amino-acyl groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020616

F

Seeded from EcoCyc (v14.0)

complete

GO:0016747

transferase activity, transferring acyl groups other than amino-acyl groups

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020617

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 fatty acid oxidation complex, β component

could be indirect

Protein

cysB

PMID:19402753

MALDI(Z-score):45.188333

Protein

Subunits of fatty acid oxidation complex

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 

MEQVVIVDAI RTPMGRSKGG AFRNVRAEDL SAHLMRSLLA RNPALEAAAL DDIYWGCVQQ
TLEQGFNIAR NAALLAEVPH SVPAVTVNRL CGSSMQALHD AARMIMTGDA QACLVGGVEH
MGHVPMSHGV DFHPGLSRNV AKAAGMMGLT AEMLARMHGI SREMQDAFAA RSHARAWAAT
QSAAFKNEII PTGGHDADGV LKQFNYDEVI RPETTVEALA TLRPAFDPVN GMVTAGTSSA
LSDGAAAMLV MSESRAHELG LKPRARVRSM AVVGCDPSIM GYGPVPASKL ALKKAGLSAS
DIGVFEMNEA FAAQILPCIK DLGLIEQIDE KINLNGGAIA LGHPLGCSGA RISTTLLNLM
ERKDVQFGLA TMCIGLGQGI ATVFERV
Length

387

Mol. Wt

40.875 kDa

pI

6.9 (calculated)

Extinction coefficient

15,470 - 16,345 (calc based on 3 Y, 2 W, and 7 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

1..254

PF00108 Thiolase, N-terminal domain

PMID:19920124

Domain

261..386

PF02803 Thiolase, C-terminal domain

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=fadA 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:49176430

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948324

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012562

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P21151

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10278

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10278

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948324

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000272

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0274

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

Ecoli K-12

2.905+/-0.043

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.010748065

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

19

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

75

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

15a

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

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)

fadBA

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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_000913:4026775..4026815 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:b3845 (EcoliWiki Page)

NCBI GEO profiles for fadA

microarray

GenExpDB:b3845 (EcoliWiki Page)

Summary of data for fadA 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 fadA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10278

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0274

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3845

EcoGene

EcoGene:EG10278

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000272

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012562

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

FADA

From SHIGELLACYC

E. coli O157

FADA

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

Superfamily (EcoliWiki Page)

SUPERFAMILY:53901

Superfamily (EcoliWiki Page)

SUPERFAMILY:53901

Panther (EcoliWiki Page)

PTHR18919:SF35

Pfam (EcoliWiki Page)

PF00108 Thiolase, N-terminal domain

Pfam (EcoliWiki Page)

PF02803 Thiolase, C-terminal domain

EcoCyc

EcoCyc:EG10278

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10278

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000272

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0274

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012562

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 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 3.4 3.5 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 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).
  6. ↑ 6.0 6.1 6.2 CGSC: The Coli Genetics Stock Center

Categories

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