fabA: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

fabA

Gene Synonym(s)

ECK0945, b0954, JW0937[1], JW0937

Product Desc.

FabA[2][3];

Component of FABA-CPLX[2]

3R-3-hydroxydecanoyl acyl carrier protein (ACP) dehydratase; also called beta-hydroxydecanoylthioester dehydrase[4]

Product Synonyms(s)

beta-hydroxydecanoyl thioester dehydrase[1], B0954[2][1], FabA[2][1] , ECK0945, JW0937, b0954

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): fabA[2], OP00130

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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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

fabA

Mnemonic

Fatty acid biosynthesis

Synonyms

ECK0945, b0954, JW0937[1], JW0937

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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

21.88 minutes 

MG1655: 1015693..1015175
<gbrowseImage> name=NC_000913:1015175..1015693 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1033561..1033043
<gbrowseImage> name=NC_012967:1033043..1033561 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 918143..918661
<gbrowseImage> name=NC_012759:918143..918661 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1016892..1016374
<gbrowseImage> name=NC_007779:1016374..1016892 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1069621..1069103
<gbrowseImage> name=NC_010473:1069103..1069621 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

1015175

Edman degradation

PMID:2832401


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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

fabAP76L

P76L

(in allele FABA6; TS)

Strain variation; seeded from UniProt:P0A6Q3

fabAG102D

G102D

(in allele FABA2; TS)

Strain variation; seeded from UniProt:P0A6Q3

fabA18(ts)

temperature sensitive

CGSC:6300

fabA2(ts)

temperature sensitive

CGSC:5236

fabA203(p)

PMID:6362720

CGSC:7453


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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

JW0937

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGTAGATAAACGCGAATCCTA

Primer 2:CCGAAGGCAGACGTATCCTGGAA

E2E5

Kohara Phage

Genobase

PMID:3038334

zcb-3059::Tn10

Linked marker

CAG12094 = CGSC7358[5]

est. P1 cotransduction: 64% [6]

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[5]

est. P1 cotransduction: 12% [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:EG10273

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10273

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000267

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945568

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0269

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003229

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

FabA

Synonyms

beta-hydroxydecanoyl thioester dehydrase[1], B0954[2][1], FabA[2][1] , ECK0945, JW0937, b0954

Product description

FabA[2][3];

Component of FABA-CPLX[2]

3R-3-hydroxydecanoyl acyl carrier protein (ACP) dehydratase; also called beta-hydroxydecanoylthioester dehydrase[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:IPR000794

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00405

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010083

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:0006633

fatty acid biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00405

P

Seeded from EcoCyc (v14.0)

complete

GO:0006633

fatty acid biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010083

P

Seeded from EcoCyc (v14.0)

complete

GO:0006633

fatty acid biosynthetic process

PMID:19679654

IGI: Inferred from Genetic Interaction

UniProtKB:Q39473


P

complete

GO:0006633

fatty acid biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0275

P

Seeded from EcoCyc (v14.0)

complete

GO:0008610

lipid biosynthetic process

PMID:19679654

IGI: Inferred from Genetic Interaction

UniProtKB:Q39473 EcoliWiki:fadD


P

complete

GO:0008610

lipid biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0444

P

Seeded from EcoCyc (v14.0)

complete

GO:0008693

3-hydroxydecanoyl-(acyl-carrier-protein) dehydratase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00405

F

Seeded from EcoCyc (v14.0)

complete

GO:0008693

3-hydroxydecanoyl-(acyl-carrier-protein) dehydratase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010083

F

Seeded from EcoCyc (v14.0)

complete

GO:0008693

3-hydroxydecanoyl-(acyl-carrier-protein) dehydratase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.2.1.60

F

Seeded from EcoCyc (v14.0)

complete

GO:0009058

biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000794

P

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0456

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 FABA-CPLX

could be indirect

Protein

accA

PMID:15690043

Experiment(s):EBI-887293

Protein

ves

PMID:15690043

Experiment(s):EBI-887293

Protein

deaD

PMID:15690043

Experiment(s):EBI-887293

Protein

ffh

PMID:15690043

Experiment(s):EBI-887293

Protein

metK

PMID:15690043

Experiment(s):EBI-887293

Protein

rplA

PMID:15690043

Experiment(s):EBI-887293

Protein

rplB

PMID:15690043

Experiment(s):EBI-887293

Protein

rplS

PMID:15690043

Experiment(s):EBI-887293

Protein

rpsA

PMID:15690043

Experiment(s):EBI-887293

Protein

rpsB

PMID:15690043

Experiment(s):EBI-887293

Protein

rpsE

PMID:15690043

Experiment(s):EBI-887293

Protein

rpsG

PMID:15690043

Experiment(s):EBI-887293

Protein

rpsI

PMID:15690043

Experiment(s):EBI-887293

Protein

rpsM

PMID:15690043

Experiment(s):EBI-887293

Protein

tig

PMID:15690043

Experiment(s):EBI-887293

Protein

tufA

PMID:15690043

Experiment(s):EBI-887293

Protein

hupA

PMID:15690043

Experiment(s):EBI-893249

Protein

rpsR

PMID:15690043

Experiment(s):EBI-893249

Protein

sucB

PMID:16606699

Experiment(s):EBI-1138471

Protein

yfdS

PMID:16606699

Experiment(s):EBI-1138471

Protein

ygeY

PMID:16606699

Experiment(s):EBI-1138471

Protein

rpoC

PMID:16606699

Experiment(s):EBI-1138471

Protein

lacZ

PMID:16606699

Experiment(s):EBI-1138471

Protein

ybfC

PMID:16606699

Experiment(s):EBI-1138471

Protein

ilvA

PMID:16606699

Experiment(s):EBI-1138471

Protein

rpoB

PMID:16606699

Experiment(s):EBI-1138471

Protein

rpsR

PMID:19402753

LCMS(ID Probability):99.4

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753

LCMS(ID Probability):99.6

Protein

pflB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplK

PMID:19402753

LCMS(ID Probability):99.6

Protein

gapA

PMID:19402753

LCMS(ID Probability):99.6

Protein

gadB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplB

PMID:19402753

MALDI(Z-score):26.679973

Protein

rpsM

PMID:19402753

MALDI(Z-score):27.146181

Protein

rpsF

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753

LCMS(ID Probability):99.6

Protein

eno

PMID:19402753

LCMS(ID Probability):99.6

Protein

ahpC

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753

MALDI(Z-score):27.129490

Protein

groS

PMID:19402753

LCMS(ID Probability):99.6

Protein

metK

PMID:19402753

MALDI(Z-score):30.362662

Protein

rplA

PMID:19402753

MALDI(Z-score):28.482664

Protein

pgk

PMID:19402753

LCMS(ID Probability):99.6

Protein

tig

PMID:19402753

MALDI(Z-score):20.265244

Protein

ffh

PMID:19402753

MALDI(Z-score):30.108857

Protein

fabB

PMID:19402753

MALDI(Z-score):24.965065

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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 

MVDKRESYTK EDLLASGRGE LFGAKGPQLP APNMLMMDRV VKMTETGGNF DKGYVEAELD
INPDLWFFGC HFIGDPVMPG CLGLDAMWQL VGFYLGWLGG EGKGRALGVG EVKFTGQVLP
TAKKVTYRIH FKRIVNRRLI MGLADGEVLV DGRLIYTASD LKVGLFQDTS AF
Length

172

Mol. Wt

18.969 kDa

pI

6.5 (calculated)

Extinction coefficient

23,950 - 24,200 (calc based on 5 Y, 3 W, and 2 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:P0A6Q3

Domain

29..159

PF07977 FabA-like 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=fabA 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:16128921

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945568

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003229

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6Q3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10273

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10273

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945568

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000267

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0269

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

2.34E+04

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

610.512+/-6.309

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.507722008

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

22820

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

4392

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

11905

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)

fabA

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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_000913:1015673..1015713 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:b0954 (EcoliWiki Page)

NCBI GEO profiles for fabA

microarray

GenExpDB:b0954 (EcoliWiki Page)

Summary of data for fabA 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 fabA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10273

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0269

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0954

EcoGene

EcoGene:EG10273

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000267

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003229

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

Xenopus tropicalis

  • ENSXETP00000009582 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

FABA

From SHIGELLACYC

E. coli O157

FABA

From ECOO157CYC

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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database Accession Notes

Pfam (EcoliWiki Page)

PF07977 FabA-like domain


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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. ↑ 1.0 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. ↑ 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. ↑ 3.0 3.1 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 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).

Categories

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