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Entry version 120 (12 Aug 2020)
Sequence version 1 (20 Dec 2005)
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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

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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

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

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position and type of each DNA-binding domain present within the protein.<p><a href='/help/dna_bind' target='_top'>More...</a></p>DNA bindingi207 – 226H-T-H motifUniRule annotationAdd BLAST20

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionDNA-binding, Sigma factor
Biological processTranscription, Transcription regulation

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
EcoCyc:EG11355-MONOMER
ECOL316407:JW1907-MONOMER
MetaCyc:EG11355-MONOMER

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>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
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:fliAUniRule annotation
Synonyms:flaD, rpoF
Ordered Locus Names:b1922, JW1907
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiEscherichia coli (strain K12)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri83333 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000318 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the 'Pathology and Biotech' section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

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

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>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

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000939811 – 239RNA polymerase sigma factor FliAAdd BLAST239

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P0AEM6

PRoteomics IDEntifications database

More...
PRIDEi
P0AEM6

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
4259656, 28 interactors
853104, 3 interactors

ComplexPortal: manually curated resource of macromolecular complexes

More...
ComplexPortali
CPX-4886, DNA-directed RNA polymerase holoenzyme complex, SigmaF variant

Database of interacting proteins

More...
DIPi
DIP-47959N

Protein interaction database and analysis system

More...
IntActi
P0AEM6, 21 interactors

STRING: functional protein association networks

More...
STRINGi
511145.b1922

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P0AEM6

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>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
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi43 – 46Interaction with polymerase core subunit RpoC4

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>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

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

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

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG1191, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_014793_8_1_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P0AEM6

KEGG Orthology (KO)

More...
KOi
K02405

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P0AEM6

Family and domain databases

HAMAP database of protein families

More...
HAMAPi
MF_00962, Sigma70_FliA, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR014284, RNA_pol_sigma-70_dom
IPR000943, RNA_pol_sigma70
IPR007627, RNA_pol_sigma70_r2
IPR007624, RNA_pol_sigma70_r3
IPR007630, RNA_pol_sigma70_r4
IPR012845, RNA_pol_sigma_FliA_WhiG
IPR013325, RNA_pol_sigma_r2
IPR013324, RNA_pol_sigma_r3/r4-like
IPR028617, Sigma70_FliA

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF04542, Sigma70_r2, 1 hit
PF04539, Sigma70_r3, 1 hit
PF04545, Sigma70_r4, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF000770, RNA_pol_sigma-SigE/K, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00046, SIGMA70FCT

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF88659, SSF88659, 2 hits
SSF88946, SSF88946, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02479, FliA_WhiG, 1 hit
TIGR02937, sigma70-ECF, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00715, SIGMA70_1, 1 hit
PS00716, SIGMA70_2, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iB2930B44E1F24A33
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
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

Protein sequence database of the Protein Information Resource

More...
PIRi
JC4346

NCBI Reference Sequences

More...
RefSeqi
NP_416432.3, NC_000913.3
WP_001087467.1, NZ_SSZK01000069.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAC74989; AAC74989; b1922
BAA15742; BAA15742; BAA15742

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
948824

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ecj:JW1907
eco:b1922

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|1411691.4.peg.327

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>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_SSZK01000069.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
6PMIelectron microscopy3.86F1-239[»]
6PMJelectron microscopy3.91F1-239[»]
SMRiP0AEM6
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi4259656, 28 interactors
853104, 3 interactors
ComplexPortaliCPX-4886, DNA-directed RNA polymerase holoenzyme complex, SigmaF variant
DIPiDIP-47959N
IntActiP0AEM6, 21 interactors
STRINGi511145.b1922

Proteomic databases

PaxDbiP0AEM6
PRIDEiP0AEM6

Genome annotation databases

EnsemblBacteriaiAAC74989; AAC74989; b1922
BAA15742; BAA15742; BAA15742
GeneIDi948824
KEGGiecj:JW1907
eco:b1922
PATRICifig|1411691.4.peg.327

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...
EchoBASEi
EB1330

Phylogenomic databases

eggNOGiCOG1191, Bacteria
HOGENOMiCLU_014793_8_1_6
InParanoidiP0AEM6
KOiK02405
PhylomeDBiP0AEM6

Enzyme and pathway databases

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

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P0AEM6

Family and domain databases

HAMAPiMF_00962, Sigma70_FliA, 1 hit
InterProiView protein in InterPro
IPR014284, RNA_pol_sigma-70_dom
IPR000943, RNA_pol_sigma70
IPR007627, RNA_pol_sigma70_r2
IPR007624, RNA_pol_sigma70_r3
IPR007630, RNA_pol_sigma70_r4
IPR012845, RNA_pol_sigma_FliA_WhiG
IPR013325, RNA_pol_sigma_r2
IPR013324, RNA_pol_sigma_r3/r4-like
IPR028617, Sigma70_FliA
PfamiView protein in Pfam
PF04542, Sigma70_r2, 1 hit
PF04539, Sigma70_r3, 1 hit
PF04545, Sigma70_r4, 1 hit
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
PROSITEiView protein in PROSITE
PS00715, SIGMA70_1, 1 hit
PS00716, SIGMA70_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiFLIA_ECOLI
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P0AEM6
Secondary accession number(s): P31804
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: August 12, 2020
This is version 120 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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