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Protein

RNA polymerase sigma factor FliA

Gene

fliA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor controls the expression of flagella-related genes.UniRule annotation4 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi207 – 226H-T-H motifUniRule annotationAdd BLAST20

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Sigma factor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG11355-MONOMER.
ECOL316407:JW1907-MONOMER.
MetaCyc:EG11355-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor FliAUniRule annotation
Alternative name(s):
RNA polymerase sigma factor for flagellar operonUniRule annotation
Sigma FUniRule annotation
Sigma-27
Sigma-28UniRule annotation
Gene namesi
Name:fliAUniRule annotation
Synonyms:flaD, rpoF
Ordered Locus Names:b1922, JW1907
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11355. fliA.

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Mutants have poor biofilms (decrease in biomass, surface coverage and mean thickness).1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi73Q → A: No change in activity. 1 Publication1
Mutagenesisi74R → A or W: Decrease in activity. 1 Publication1
Mutagenesisi78A → E: Decrease in activity. 1 Publication1
Mutagenesisi81D → A: Loss of activity. 1 Publication1
Mutagenesisi84R → A: Loss of activity. 1 Publication1
Mutagenesisi91R → A: Loss of activity. 1 Publication1
Mutagenesisi92S → A: No change in activity. 1 Publication1
Mutagenesisi94R → A: Decrease in activity. 1 Publication1
Mutagenesisi95R → A: No change in activity. 1 Publication1
Mutagenesisi96N → A: No change in activity. 1 Publication1
Mutagenesisi98R → A: Strong decrease in activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000939811 – 239RNA polymerase sigma factor FliAAdd BLAST239

Proteomic databases

PaxDbiP0AEM6.
PRIDEiP0AEM6.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
flgMP0AEM44EBI-549807,EBI-1121952

Protein-protein interaction databases

BioGridi4259656. 28 interactors.
DIPiDIP-47959N.
IntActiP0AEM6. 21 interactors.
MINTiMINT-1250982.
STRINGi511145.b1922.

Structurei

3D structure databases

ProteinModelPortaliP0AEM6.
SMRiP0AEM6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni16 – 88Sigma-70 factor domain-2Add BLAST73
Regioni96 – 166Sigma-70 factor domain-3Add BLAST71
Regioni185 – 233Sigma-70 factor domain-4Add BLAST49

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi43 – 46Interaction with polymerase core subunit RpoC4

Domaini

The sigma-70 factor domain-2 mediates sequence-specific interaction with the -10 element in promoter DNA, and plays an important role in melting the double-stranded DNA and the formation of the transcription bubble. The sigma-70 factor domain-2 mediates interaction with the RNA polymerase subunits RpoB and RpoC (By similarity).By similarity
The sigma-70 factor domain-4 contains a helix-turn-helix (H-T-H) motif that mediates interaction with the -35 element in promoter DNA. The domain also mediates interaction with the RNA polymerase subunit RpoA (By similarity).By similarity

Sequence similaritiesi

Belongs to the sigma-70 factor family. FliA subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105DN4. Bacteria.
COG1191. LUCA.
HOGENOMiHOG000270271.
InParanoidiP0AEM6.
KOiK02405.
OMAiHEEANPL.
PhylomeDBiP0AEM6.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00962. Sigma70_FliA. 1 hit.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR016263. RNA_pol_sigma_factor.
IPR012845. RNA_pol_sigma_FliA_WhiG.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR028617. Sigma70_FliA.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PIRSFiPIRSF000770. RNA_pol_sigma-SigE/K. 1 hit.
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02479. FliA_WhiG. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0AEM6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNSLYTAEGV MDKHSLWQRY VPLVRHEALR LQVRLPASVE LDDLLQAGGI
60 70 80 90 100
GLLNAVERYD ALQGTAFTTY AVQRIRGAML DELRSRDWVP RSVRRNAREV
110 120 130 140 150
AQAIGQLEQE LGRNATETEV AERLGIDIAD YRQMLLDTNN SQLFSYDEWR
160 170 180 190 200
EEHGDSIELV TDDHQRENPL QQLLDSNLRQ RVMEAIETLP EREKLVLTLY
210 220 230
YQEELNLKEI GAVLEVGESR VSQLHSQAIK RLRTKLGKL
Length:239
Mass (Da):27,521
Last modified:December 20, 2005 - v1
Checksum:iB2930B44E1F24A33
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L36677 Genomic DNA. Translation: AAC37011.1.
U18539 Genomic DNA. Translation: AAC43543.1.
U00096 Genomic DNA. Translation: AAC74989.1.
AP009048 Genomic DNA. Translation: BAA15742.1.
PIRiJC4346.
RefSeqiNP_416432.3. NC_000913.3.
WP_001087467.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74989; AAC74989; b1922.
BAA15742; BAA15742; BAA15742.
GeneIDi948824.
KEGGiecj:JW1907.
eco:b1922.
PATRICi32119179. VBIEscCol129921_2004.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L36677 Genomic DNA. Translation: AAC37011.1.
U18539 Genomic DNA. Translation: AAC43543.1.
U00096 Genomic DNA. Translation: AAC74989.1.
AP009048 Genomic DNA. Translation: BAA15742.1.
PIRiJC4346.
RefSeqiNP_416432.3. NC_000913.3.
WP_001087467.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0AEM6.
SMRiP0AEM6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259656. 28 interactors.
DIPiDIP-47959N.
IntActiP0AEM6. 21 interactors.
MINTiMINT-1250982.
STRINGi511145.b1922.

Proteomic databases

PaxDbiP0AEM6.
PRIDEiP0AEM6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74989; AAC74989; b1922.
BAA15742; BAA15742; BAA15742.
GeneIDi948824.
KEGGiecj:JW1907.
eco:b1922.
PATRICi32119179. VBIEscCol129921_2004.

Organism-specific databases

EchoBASEiEB1330.
EcoGeneiEG11355. fliA.

Phylogenomic databases

eggNOGiENOG4105DN4. Bacteria.
COG1191. LUCA.
HOGENOMiHOG000270271.
InParanoidiP0AEM6.
KOiK02405.
OMAiHEEANPL.
PhylomeDBiP0AEM6.

Enzyme and pathway databases

BioCyciEcoCyc:EG11355-MONOMER.
ECOL316407:JW1907-MONOMER.
MetaCyc:EG11355-MONOMER.

Miscellaneous databases

PROiP0AEM6.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00962. Sigma70_FliA. 1 hit.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR016263. RNA_pol_sigma_factor.
IPR012845. RNA_pol_sigma_FliA_WhiG.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR028617. Sigma70_FliA.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PIRSFiPIRSF000770. RNA_pol_sigma-SigE/K. 1 hit.
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02479. FliA_WhiG. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiFLIA_ECOLI
AccessioniPrimary (citable) accession number: P0AEM6
Secondary accession number(s): P31804
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: November 2, 2016
This is version 94 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The distinguishing feature of FliA promoters is a long -10 region (GCCGATAA). The upstream GC constitutes an extended -10 motif and is recognized by Arg-91 (PubMed:19400790).1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.