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Entry version 132 (25 May 2022)
Sequence version 1 (01 Oct 1996)
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Protein

HTH-type quorum-sensing regulator RhlR

Gene

rhlR

Organism
Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
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

Quorum-sensing regulator that controls the expression of multiple virulence factors in response to extracellular signaling molecules called autoinducers (PubMed:7494482, PubMed:8522523, PubMed:15576196).

Involved, among others, in the transcriptional regulation of genes that are responsible for rhamnolipid surfactant biosynthesis (PubMed:8144472, PubMed:7604006, PubMed:14526008).

Acts by binding to a specific sequence in the rhlAB regulatory region, both in the presence and in the absence of its autoinducer (PubMed:14526008).

In the former case it activates transcription of the promoter, whereas in the latter it acts as a transcriptional repressor (PubMed:14526008).

Also regulates the expression of the rmlBDAC operon, encoding dTDP-L-rhamnose biosynthetic enzymes, by binding to the rml box in the promoter region (PubMed:22262098).

In addition, is involved in the regulation of the production of elastase (lasB) and pyocyanine (PubMed:8144472, PubMed:7604006, PubMed:8522523).

7 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Activated by interaction with the autoinducer signal molecule N-butanoyl-L-homoserine lactone (C4-HSL or BHL), the product of the RhlI synthase (PubMed:7604006, PubMed:14526008, PubMed:26732761). Is also activated by binding to rosmarinic acid (RA), a homoserine lactone mimic produced by plants, which induces a broad quorum sensing response, including the induction of all major quorum sensing controlled virulence factors. Rosmarinic acid secretion may be a plant defense mechanism to stimulate a premature quorum sensing response (PubMed:26732761, PubMed:30051572).4 Publications

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 bindingi198 – 217H-T-H motifPROSITE-ProRule 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 functionActivator, DNA-binding, Repressor
Biological processQuorum sensing, Transcription, Transcription regulation

<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:
HTH-type quorum-sensing regulator RhlRCurated
Alternative name(s):
Elastase modulator1 Publication
Regulatory protein RhlR
<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:rhlR1 Publication
Synonyms:lasM1 Publication, vsmR1 Publication
Ordered Locus Names:PA3477
<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>OrganismiPseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
<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 identifieri208964 [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 lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
<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
  • UP000002438 <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

Organism-specific databases

Pseudomonas genome database

More...
PseudoCAPi
PA3477

<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

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

Disruption mutant shows defects in the production of rhamnolipids, elastase and pyocyanine (PubMed:8144472, PubMed:7604006, PubMed:8522523). It also exhibits reduced LasA protease activity and casein-degrading activity (PubMed:8522523).3 Publications

Miscellaneous databases

Pathogen-Host Interaction database

More...
PHI-basei
PHI:6748
PHI:6996
PHI:7656
PHI:8547
PHI:8822

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL3112386

<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_00001841861 – 241HTH-type quorum-sensing regulator RhlRAdd BLAST241

Proteomic databases

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

More...
PaxDbi
P54292

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

The rhlR promoter region contains four different transcription start sites, two of which are included in the upstream gene (rhlB) coding region. The rhlR gene is subject to a complex transcriptional regulation. Expression is dependent on LasR and on different regulatory proteins such as Vfr and RhlR itself, and also on the alternative sigma factor sigma(54). Expression is partially LasR-independent under certain culture conditions and is strongly influenced by environmental factors.1 Publication

Gene expression databases

CollecTF database of bacterial transcription factor binding sites

More...
CollecTFi
EXPREG_00000b10

<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 the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer in the absence of any acyl-L-homoserine lactone (PubMed:12657054). The presence of the autoinducer C4-HSL has no significant effect on dimerization whereas N-(3-oxododecanoyl)-L-homoserine lactone (3O-C12-HSL), the LasR inducer, is able to dissociate the RhlR homodimers into monomers (PubMed:12657054).

1 Publication

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
287.DR97_4444

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
P54292

<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

AlphaFold Protein Structure Database

More...
AlphaFoldDBi
P54292

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

More...
SMRi
P54292

Database of comparative protein structure models

More...
ModBasei
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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini174 – 239HTH luxR-typePROSITE-ProRule annotationAdd BLAST66

<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

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_072786_7_1_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P54292

Identification of Orthologs from Complete Genome Data

More...
OMAi
NHTVDWY

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P54292

Family and domain databases

Conserved Domains Database

More...
CDDi
cd06170, LuxR_C_like, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.10.10, 1 hit
3.30.450.80, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR016032, Sig_transdc_resp-reg_C-effctor
IPR005143, TF_LuxR_autoind-bd_dom
IPR036693, TF_LuxR_autoind-bd_dom_sf
IPR000792, Tscrpt_reg_LuxR_C
IPR036388, WH-like_DNA-bd_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF03472, Autoind_bind, 1 hit
PF00196, GerE, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00038, HTHLUXR

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00421, HTH_LUXR, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF46894, SSF46894, 1 hit
SSF75516, SSF75516, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00622, HTH_LUXR_1, 1 hit
PS50043, HTH_LUXR_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.

P54292-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRNDGGFLLW WDGLRSEMQP IHDSQGVFAV LEKEVRRLGF DYYAYGVRHT
60 70 80 90 100
IPFTRPKTEV HGTYPKAWLE RYQMQNYGAV DPAILNGLRS SEMVVWSDSL
110 120 130 140 150
FDQSRMLWNE ARDWGLCVGA TLPIRAPNNL LSVLSVARDQ QNISSFEREE
160 170 180 190 200
IRLRLRCMIE LLTQKLTDLE HPMLMSNPVC LSHREREILQ WTADGKSSGE
210 220 230 240
IAIILSISES TVNFHHKNIQ KKFDAPNKTL AAAYAAALGL I
Length:241
Mass (Da):27,578
Last modified:October 1, 1996 - 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:i70C0AEA8C1DE0D4B
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti12D → H in AAA89073 (PubMed:7494482).Curated1
Sequence conflicti16S → C in AAA89073 (PubMed:7494482).Curated1
Sequence conflicti99S → R in AAA89073 (PubMed:7494482).Curated1

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
U40458 Genomic DNA Translation: AAC44036.1
L08962 Genomic DNA Translation: AAA25983.1
U15644 Genomic DNA Translation: AAA89073.1
AE004091 Genomic DNA Translation: AAG06865.1
L28170 Genomic DNA Translation: AAA62130.1

Protein sequence database of the Protein Information Resource

More...
PIRi
B83212
C53652
S70174

NCBI Reference Sequences

More...
RefSeqi
NP_252167.1, NC_002516.2
WP_003119559.1, NZ_QZGE01000039.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAG06865; AAG06865; PA3477

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
878968

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
pae:PA3477

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|208964.12.peg.3640

<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
U40458 Genomic DNA Translation: AAC44036.1
L08962 Genomic DNA Translation: AAA25983.1
U15644 Genomic DNA Translation: AAA89073.1
AE004091 Genomic DNA Translation: AAG06865.1
L28170 Genomic DNA Translation: AAA62130.1
PIRiB83212
C53652
S70174
RefSeqiNP_252167.1, NC_002516.2
WP_003119559.1, NZ_QZGE01000039.1

3D structure databases

AlphaFoldDBiP54292
SMRiP54292
ModBaseiSearch...

Protein-protein interaction databases

STRINGi287.DR97_4444

Chemistry databases

BindingDBiP54292
ChEMBLiCHEMBL3112386

Proteomic databases

PaxDbiP54292

Genome annotation databases

EnsemblBacteriaiAAG06865; AAG06865; PA3477
GeneIDi878968
KEGGipae:PA3477
PATRICifig|208964.12.peg.3640

Organism-specific databases

PseudoCAPiPA3477

Phylogenomic databases

HOGENOMiCLU_072786_7_1_6
InParanoidiP54292
OMAiNHTVDWY
PhylomeDBiP54292

Miscellaneous databases

PHI-baseiPHI:6748
PHI:6996
PHI:7656
PHI:8547
PHI:8822

Gene expression databases

CollecTFiEXPREG_00000b10

Family and domain databases

CDDicd06170, LuxR_C_like, 1 hit
Gene3Di1.10.10.10, 1 hit
3.30.450.80, 1 hit
InterProiView protein in InterPro
IPR016032, Sig_transdc_resp-reg_C-effctor
IPR005143, TF_LuxR_autoind-bd_dom
IPR036693, TF_LuxR_autoind-bd_dom_sf
IPR000792, Tscrpt_reg_LuxR_C
IPR036388, WH-like_DNA-bd_sf
PfamiView protein in Pfam
PF03472, Autoind_bind, 1 hit
PF00196, GerE, 1 hit
PRINTSiPR00038, HTHLUXR
SMARTiView protein in SMART
SM00421, HTH_LUXR, 1 hit
SUPFAMiSSF46894, SSF46894, 1 hit
SSF75516, SSF75516, 1 hit
PROSITEiView protein in PROSITE
PS00622, HTH_LUXR_1, 1 hit
PS50043, HTH_LUXR_2, 1 hit

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 nameiRHLR_PSEAE
<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: P54292
Secondary accession number(s): Q9HYD2
<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: October 1, 1996
Last sequence update: October 1, 1996
Last modified: May 25, 2022
This is version 132 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

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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