fabF: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

fabF

Gene Synonym(s)

ECK1081, b1095, JW1081, cvc, fabJ, vtr, vtrB[1]

Product Desc.

FabF[2][3];

Component of 3-oxoacyl-ACP synthase II[2]

beta-Ketoacyl-ACP synthase II; KAS II; homodimeric[4]

Product Synonyms(s)

3-oxoacyl-[acyl-carrier-protein] synthase II[1], B1095[2][1], Vtr[2][1], Cvc[2][1], VtrB[2][1], FabJ[2][1], FabF[2][1] , cvc, ECK1081, fabJ, JW1081, vtr, b1095

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): acpP-fabF[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

fabF

Mnemonic

Fatty acid biosynthesis

Synonyms

ECK1081, b1095, JW1081, cvc, fabJ, vtr, vtrB[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

24.81 minutes 

MG1655: 1151162..1152403
<gbrowseImage> name=NC_000913:1151162..1152403 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1166508..1167749
<gbrowseImage> name=NC_012967:1166508..1167749 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1055087..1056328
<gbrowseImage> name=NC_012759:1055087..1056328 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1153516..1154757
<gbrowseImage> name=NC_007779:1153516..1154757 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1206607..1207848
<gbrowseImage> name=NC_010473:1206607..1207848 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

1151165

Edman degradation

PMID:7972002


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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

ΔfabF (Keio:JW1081)

deletion

deletion

PMID:16738554

Shigen
CGSC9029[5]

fabF::Tn5KAN-2 (FB20101)

Insertion at nt 908 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20101

does not contain pKD46

fabF200

CGSC:7259

fabF202

CGSC:8804

ΔfabF759::kan

PMID:16738554

CGSC:100774

fabF

deletion

Sensitivity to

increases sensitivity to bicyclomycin

PMID:21357484

fig 2

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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

JW1081

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCTAAGCGTCGTGTAGTTGT

Primer 2:CCGATCTTTTTAAAGATCAAAGA

14C1

Kohara Phage

Genobase

PMID:3038334

E9G1

Kohara Phage

Genobase

PMID:3038334

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[5]

est. P1 cotransduction: % [6]

zce-726::Tn10

Linked marker

CAG12078 = CGSC7361[5]

est. P1 cotransduction: 87% [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:EG12606

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12606

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002329

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946665

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2490

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003705

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

FabF

Synonyms

3-oxoacyl-[acyl-carrier-protein] synthase II[1], B1095[2][1], Vtr[2][1], Cvc[2][1], VtrB[2][1], FabJ[2][1], FabF[2][1] , cvc, ECK1081, fabJ, JW1081, vtr, b1095

Product description

FabF[2][3];

Component of 3-oxoacyl-ACP synthase II[2]

beta-Ketoacyl-ACP synthase II; KAS II; homodimeric[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: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:0005829

cytosol

PMID:16858726

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0006633

fatty acid biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017568

P

Seeded from EcoCyc (v14.0)

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: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: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: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:0009058

biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000794

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:IPR017568

F

Seeded from EcoCyc (v14.0)

complete

GO:0033817

beta-ketoacyl-acyl-carrier-protein synthase II activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.3.1.179

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 3-oxoacyl-ACP synthase II

could be indirect

Protein

dnaK

PMID:15690043

Experiment(s):EBI-887268, EBI-893240

Protein

dcd

PMID:16606699

Experiment(s):EBI-1138841

Protein

napG

PMID:16606699

Experiment(s):EBI-1138841

Protein

ycbZ

PMID:19402753

MALDI(Z-score):28.281884

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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 

MSKRRVVVTG LGMLSPVGNT VESTWKALLA GQSGISLIDH FDTSAYATKF AGLVKDFNCE
DIISRKEQRK MDAFIQYGIV AGVQAMQDSG LEITEENATR IGAAIGSGIG GLGLIEENHT
SLMNGGPRKI SPFFVPSTIV NMVAGHLTIM YGLRGPSISI ATACTSGVHN IGHAARIIAY
GDADVMVAGG AEKASTPLGV GGFGAARALS TRNDNPQAAS RPWDKERDGF VLGDGAGMLV
LEEYEHAKKR GAKIYAELVG FGMSSDAYHM TSPPENGAGA ALAMANALRD AGIEASQIGY
VNAHGTSTPA GDKAEAQAVK TIFGEAASRV LVSSTKSMTG HLLGAAGAVE SIYSILALRD
QAVPPTINLD NPDEGCDLDF VPHEARQVSG MEYTLCNSFG FGGTNGSLIF KKI
Length

413

Mol. Wt

43.046 kDa

pI

6.0 (calculated)

Extinction coefficient

25,900 - 26,400 (calc based on 10 Y, 2 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

Initiator Methionine

1

Removed

UniProt:P0AAI5

Domain

3..247

PF00109 Beta-ketoacyl synthase, N-terminal domain

PMID:19920124

Domain

255..370

PF02801 Beta-ketoacyl synthase, 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=fabF 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:16129058

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946665

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003705

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AAI5

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12606

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12606

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946665

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002329

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2490

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 MC4100

1.28E+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

Ecoli K-12

73.676+/-0.644

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.553988719

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

15814

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

1598

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

8356

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)

acpP-fabF

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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_000913:1151142..1151182 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b1095 (EcoliWiki Page)

NCBI GEO profiles for fabF

microarray

GenExpDB:b1095 (EcoliWiki Page)

Summary of data for fabF 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 (1151001..1151199) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ05; Well:G8[7]

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Notes

Accessions Related to fabF Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG12606

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2490

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1095

EcoGene

EcoGene:EG12606

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002329

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003705

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

  • ENSANGP00000016915 (score: 1.000; bootstrap: 50%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000003827 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT2G04540 (score: 1.000; bootstrap: 56%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000009250 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00026574 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00008667 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000008477 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000008792 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-041210-242 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0217614 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0037356 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA17498-PA (score: 1.000; bootstrap: 100%)
  • GA17497-PA (score: 0.613)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000018434 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000280701 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000019422 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000018711 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1918397 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • P23902 (score: 1.000; bootstrap: 99%)
  • Q69YA2 (score: 1.000; bootstrap: 99%)
  • Q7XUW9 (score: 0.782)
  • Q40027 (score: 0.282)
  • Q8H3I6 (score: 0.281)
  • Q40028 (score: 0.253)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000025358 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000008035 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YER061C (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC8873c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000139048 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00033705001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000042235 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

FABF

From SHIGELLACYC

E. coli O157

FABF

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)

PF00109 Beta-ketoacyl synthase, N-terminal domain

Pfam (EcoliWiki Page)

PF02801 Beta-ketoacyl synthase, C-terminal domain

Panther (EcoliWiki Page)

PTHR11712:SF23

Superfamily (EcoliWiki Page)

SUPERFAMILY:53901

Superfamily (EcoliWiki Page)

SUPERFAMILY:53901

EcoCyc

EcoCyc:EG12606

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12606

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002329

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2490

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003705

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 1.14 1.15 1.16 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 2.13 2.14 2.15 2.16 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 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

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