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Protein

Transcription antitermination protein RfaH

Gene

rfaH

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

Functioni

Enhances distal genes transcription elongation in a specialized subset of operons that encode extracytoplasmic components. RfaH is recruited into a multi-component RNA polymerase complex by the ops element, which is a short conserved DNA sequence located downstream of the main promoter of these operons. Once bound, RfaH suppresses pausing and inhibits Rho-dependent and intrinsic termination at a subset of sites. Termination signals are bypassed, which allows complete synthesis of long RNA chains. Enhances expression of several operons involved in synthesis of lipopolysaccharides, exopolysaccharides, hemolysin, and sex factor. Also negatively controls expression and surface presentation of AG43 and possibly another AG43-independent factor that mediates cell-cell interactions and biofilm formation.UniRule annotation9 Publications

GO - Molecular functioni

  • bacterial-type RNA polymerase core enzyme binding Source: EcoCyc
  • DNA binding Source: UniProtKB-KW
  • transcription antitermination factor activity, DNA binding Source: EcoCyc
  • translation activator activity Source: EcoCyc

GO - Biological processi

  • positive regulation of translation Source: EcoCyc
  • transcription antitermination Source: EcoCyc
  • transcription elongation from bacterial-type RNA polymerase promoter Source: EcoCyc

Keywordsi

Molecular functionDNA-binding
Biological processTranscription, Transcription antitermination, Transcription regulation

Enzyme and pathway databases

BioCyciEcoCyc:EG10839-MONOMER

Protein family/group databases

MoonProtiP0AFW0

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription antitermination protein RfaHUniRule annotation
Gene namesi
Name:rfaHUniRule annotation
Synonyms:hlyT, sfrB
Ordered Locus Names:b3842, JW3818
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10839 rfaH

Subcellular locationi

GO - Cellular componenti

Pathology & Biotechi

Disruption phenotypei

Inactivation results in increased initial adhesion and biofilm formation.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000972811 – 162Transcription antitermination protein RfaHAdd BLAST162

Proteomic databases

PaxDbiP0AFW0
PRIDEiP0AFW0

Interactioni

Subunit structurei

Interacts with both the nontemplate DNA and the RNA polymerase (RNAP). Monomer in solution.UniRule annotation2 Publications

GO - Molecular functioni

  • bacterial-type RNA polymerase core enzyme binding Source: EcoCyc

Protein-protein interaction databases

IntActiP0AFW0, 7 interactors
STRINGi316385.ECDH10B_4031

Structurei

Secondary structure

1162
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 9Combined sources7
Turni11 – 13Combined sources3
Helixi14 – 23Combined sources10
Beta strandi27 – 29Combined sources3
Beta strandi32 – 51Combined sources20
Beta strandi54 – 59Combined sources6
Turni61 – 63Combined sources3
Helixi66 – 71Combined sources6
Beta strandi75 – 78Combined sources4
Beta strandi81 – 85Combined sources5
Helixi91 – 98Combined sources8
Helixi118 – 129Combined sources12
Helixi135 – 155Combined sources21

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2OUGX-ray2.10A/B/C/D1-162[»]
ProteinModelPortaliP0AFW0
SMRiP0AFW0
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0AFW0

Family & Domainsi

Domaini

The N-terminal domain contains a vast hydrophobic cavity that is buried by the C-terminal domain. This cavity may bind the RNAP and become unmasked only upon binding to the nontemplate DNA strand.1 Publication

Sequence similaritiesi

Belongs to the RfaH family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105MDZ Bacteria
COG0250 LUCA
HOGENOMiHOG000272711
InParanoidiP0AFW0
KOiK05785
OMAiNQGVECF

Family and domain databases

Gene3Di3.30.70.940, 1 hit
HAMAPiMF_00951 RfaH, 1 hit
InterProiView protein in InterPro
IPR006645 NGN_dom
IPR036735 NGN_dom_sf
IPR010215 Transcription_antiterm_RfaH
PfamiView protein in Pfam
PF02357 NusG, 1 hit
SMARTiView protein in SMART
SM00738 NGN, 1 hit
SUPFAMiSSF82679 SSF82679, 1 hit
TIGRFAMsiTIGR01955 RfaH, 1 hit

Sequencei

Sequence statusi: Complete.

P0AFW0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQSWYLLYCK RGQLQRAQEH LERQAVNCLA PMITLEKIVR GKRTAVSEPL
60 70 80 90 100
FPNYLFVEFD PEVIHTTTIN ATRGVSHFVR FGASPAIVPS AVIHQLSVYK
110 120 130 140 150
PKDIVDPATP YPGDKVIITE GAFEGFQAIF TEPDGEARSM LLLNLINKEI
160
KHSVKNTEFR KL
Length:162
Mass (Da):18,340
Last modified:December 20, 2005 - v1
Checksum:i2A298947EBB58C65
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X65013 Genomic DNA Translation: CAA46147.1
M87049 Genomic DNA Translation: AAA67638.1
M94889 Genomic DNA Translation: AAA91060.1
U00096 Genomic DNA Translation: AAC76845.1
AP009048 Genomic DNA Translation: BAE77461.1
PIRiS30732
RefSeqiNP_418284.1, NC_000913.3
WP_001192396.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC76845; AAC76845; b3842
BAE77461; BAE77461; BAE77461
GeneIDi948327
KEGGiecj:JW3818
eco:b3842
PATRICifig|1411691.4.peg.2868

Entry informationi

Entry nameiRFAH_ECOLI
AccessioniPrimary (citable) accession number: P0AFW0
Secondary accession number(s): P26614, Q2M8E5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: April 25, 2018
This is version 99 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

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