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P0AGB3

- RPOH_ECOLI

UniProt

P0AGB3 - RPOH_ECOLI

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Protein

RNA polymerase sigma factor RpoH

Gene

rpoH

Organism
Escherichia coli (strain K12)
Status
Reviewed - 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 is involved in regulation of expression of heat shock genes. Intracellular concentration of free RpoH protein increases in response to heat shock, which causes association with RNA polymerase (RNAP) and initiation of transcription of heat shock genes, including numerous global transcriptional regulators and genes involved in maintaining membrane functionality and homeostasis. RpoH is then quickly degraded, leading to a decrease in the rate of synthesis of heat shock proteins and shut-off of the heat shock response.5 PublicationsUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi253 – 27220H-T-H motifUniRule annotationAdd
BLAST

GO - Molecular functioni

  1. core RNA polymerase binding transcription factor activity Source: CACAO
  2. DNA binding Source: EcoliWiki
  3. sequence-specific DNA binding transcription factor activity Source: InterPro
  4. sigma factor activity Source: EcoliWiki
  5. zinc ion binding Source: InterPro

GO - Biological processi

  1. regulation of transcription, DNA-templated Source: EcoliWiki
  2. response to heat Source: InterPro
  3. transcription, DNA-templated Source: CACAO
  4. transcription initiation from bacterial-type RNA polymerase promoter Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Sigma factor

Keywords - Biological processi

Stress response, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:RPOH-MONOMER.
ECOL316407:JW3426-MONOMER.
MetaCyc:RPOH-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor RpoHUniRule annotation
Alternative name(s):
Heat shock regulatory protein F33.4
RNA polymerase sigma-32 factorUniRule annotation
Gene namesi
Name:rpoHUniRule annotation
Synonyms:fam, hin, htpR
Ordered Locus Names:b3461, JW3426
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

Organism-specific databases

EcoGeneiEG10897. rpoH.

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytosol Source: EcoCyc
  2. plasma membrane Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Mutants exhibit an increased sensitivity to heat shock but only in the exponential phase of aerobic growth.1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi80 – 801Q → N or R: Decrease in activity. Exhibits reduced affinity for core RNAP. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 284284RNA polymerase sigma factor RpoHPRO_0000093957Add
BLAST

Proteomic databases

PaxDbiP0AGB3.
PRIDEiP0AGB3.

Expressioni

Inductioni

Subject to complex regulation at multiple levels (transcription, translation, regulation of activity and degradation). In the absence of heat shock, or after heat shock, activity is inhibited by transient association with DnaK and DnaJ, which reduces the amounts of free active RpoH, makes it unstable and mediates its degradation by the FtsH protease. During heat shock, the intracellular concentration of RpoH increases, due to slightly increased transcription, increased synthesis and stabilization of the protein. Induction occurs mainly at the post-transcriptional level, via translational thermoregulation: at low temperature, the structure of the rpoH mRNA blocks its translation, while at high temperature, melting of the mRNA secondary structure facilitates ribosome binding and synthesis of the RpoH protein. In addition, during heat shock, stabilization of RpoH is triggered by the titration of free DnaK/DnaJ by stress-induced misfolded proteins. Can also be induced by other stress conditions, including during the first round of cell division.9 Publications

Gene expression databases

GenevestigatoriP0AGB3.

Interactioni

Subunit structurei

Interacts with the RNA polymerase core enzyme. Interacts with DnaK and DnaJ.2 PublicationsUniRule annotation

Protein-protein interaction databases

DIPiDIP-46203N.
IntActiP0AGB3. 13 interactions.
STRINGi511145.b3461.

Structurei

3D structure databases

ProteinModelPortaliP0AGB3.
SMRiP0AGB3. Positions 35-279.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni53 – 12270Sigma-70 factor domain-2UniRule annotationAdd
BLAST
Regioni228 – 28053Sigma-70 factor domain-4UniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi77 – 804Interaction with polymerase core subunit RpoC

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. RpoH subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0568.
HOGENOMiHOG000270269.
InParanoidiP0AGB3.
KOiK03089.
OMAiTANLHQA.
OrthoDBiEOG6D5G0W.
PhylomeDBiP0AGB3.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
HAMAPiMF_00961. Sigma70_RpoH.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR007627. RNA_pol_sigma70_r2.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012759. RNA_pol_sigma_RpoH_proteobac.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 1 hit.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02392. rpoH_proteo. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0AGB3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTDKMQSLAL APVGNLDSYI RAANAWPMLS ADEERALAEK LHYHGDLEAA
60 70 80 90 100
KTLILSHLRF VVHIARNYAG YGLPQADLIQ EGNIGLMKAV RRFNPEVGVR
110 120 130 140 150
LVSFAVHWIK AEIHEYVLRN WRIVKVATTK AQRKLFFNLR KTKQRLGWFN
160 170 180 190 200
QDEVEMVARE LGVTSKDVRE MESRMAAQDM TFDLSSDDDS DSQPMAPVLY
210 220 230 240 250
LQDKSSNFAD GIEDDNWEEQ AANRLTDAMQ GLDERSQDII RARWLDEDNK
260 270 280
STLQELADRY GVSAERVRQL EKNAMKKLRA AIEA
Length:284
Mass (Da):32,469
Last modified:December 20, 2005 - v1
Checksum:i628A17B4C835D00A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti185 – 1851S → A in AAA23991. (PubMed:6387714)Curated
Sequence conflicti193 – 1942QP → HA in AAA23991. (PubMed:6387714)Curated

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M20668 Genomic DNA. Translation: AAA24587.1.
J05516 Genomic DNA. No translation available.
K02177 Genomic DNA. Translation: AAA23991.1.
U00039 Genomic DNA. Translation: AAB18436.1.
U00096 Genomic DNA. Translation: AAC76486.1.
AP009048 Genomic DNA. Translation: BAE77832.1.
PIRiH65142. RGECH.
RefSeqiNP_417918.1. NC_000913.3.
YP_491973.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76486; AAC76486; b3461.
BAE77832; BAE77832; BAE77832.
GeneIDi12933503.
947970.
KEGGiecj:Y75_p3717.
eco:b3461.
PATRICi32122366. VBIEscCol129921_3560.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M20668 Genomic DNA. Translation: AAA24587.1 .
J05516 Genomic DNA. No translation available.
K02177 Genomic DNA. Translation: AAA23991.1 .
U00039 Genomic DNA. Translation: AAB18436.1 .
U00096 Genomic DNA. Translation: AAC76486.1 .
AP009048 Genomic DNA. Translation: BAE77832.1 .
PIRi H65142. RGECH.
RefSeqi NP_417918.1. NC_000913.3.
YP_491973.1. NC_007779.1.

3D structure databases

ProteinModelPortali P0AGB3.
SMRi P0AGB3. Positions 35-279.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-46203N.
IntActi P0AGB3. 13 interactions.
STRINGi 511145.b3461.

Proteomic databases

PaxDbi P0AGB3.
PRIDEi P0AGB3.

Protocols and materials databases

DNASUi 947970.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC76486 ; AAC76486 ; b3461 .
BAE77832 ; BAE77832 ; BAE77832 .
GeneIDi 12933503.
947970.
KEGGi ecj:Y75_p3717.
eco:b3461.
PATRICi 32122366. VBIEscCol129921_3560.

Organism-specific databases

EchoBASEi EB0890.
EcoGenei EG10897. rpoH.

Phylogenomic databases

eggNOGi COG0568.
HOGENOMi HOG000270269.
InParanoidi P0AGB3.
KOi K03089.
OMAi TANLHQA.
OrthoDBi EOG6D5G0W.
PhylomeDBi P0AGB3.

Enzyme and pathway databases

BioCyci EcoCyc:RPOH-MONOMER.
ECOL316407:JW3426-MONOMER.
MetaCyc:RPOH-MONOMER.

Miscellaneous databases

PROi P0AGB3.

Gene expression databases

Genevestigatori P0AGB3.

Family and domain databases

Gene3Di 1.10.10.10. 1 hit.
HAMAPi MF_00961. Sigma70_RpoH.
InterProi IPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR007627. RNA_pol_sigma70_r2.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012759. RNA_pol_sigma_RpoH_proteobac.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view ]
Pfami PF04542. Sigma70_r2. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view ]
PRINTSi PR00046. SIGMA70FCT.
SUPFAMi SSF88659. SSF88659. 1 hit.
SSF88946. SSF88946. 1 hit.
TIGRFAMsi TIGR02392. rpoH_proteo. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEi PS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Deletion and insertion mutations in the rpoH gene of Escherichia coli that produce functional sigma 32."
    Calendar R., Erickson J.W., Halling C., Nolte A.
    J. Bacteriol. 170:3479-3484(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Nucleotide sequence of the heat shock regulatory gene of E. coli suggests its protein product may be a transcription factor."
    Landick R., Vaughn V., Lau E.T., Vanbogelen R.A., Erickson J.W., Neidhardt F.C.
    Cell 38:175-182(1984) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  3. "Heat shock regulatory gene (htpR) of Escherichia coli is required for growth at high temperature but is dispensable at low temperature."
    Yura T., Tobe T., Ito K., Osawa T.
    Proc. Natl. Acad. Sci. U.S.A. 81:6803-6807(1984) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
  4. "Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76.0 to 81.5 minutes."
    Sofia H.J., Burland V., Daniels D.L., Plunkett G. III, Blattner F.R.
    Nucleic Acids Res. 22:2576-2586(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  6. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  7. "Sigma 32 synthesis can regulate the synthesis of heat shock proteins in Escherichia coli."
    Grossman A.D., Straus D.B., Walter W.A., Gross C.A.
    Genes Dev. 1:179-184(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION.
  8. "Regulation of the promoters and transcripts of rpoH, the Escherichia coli heat shock regulatory gene."
    Erickson J.W., Vaughn V., Walter W.A., Neidhardt F.C., Gross C.A.
    Genes Dev. 1:419-432(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
  9. "The heat shock response of E. coli is regulated by changes in the concentration of sigma 32."
    Straus D.B., Walter W.A., Gross C.A.
    Nature 329:348-351(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION.
  10. "A cycle of binding and release of the DnaK, DnaJ and GrpE chaperones regulates activity of the Escherichia coli heat shock transcription factor sigma32."
    Gamer J., Multhaup G., Tomoyasu T., McCarty J.S., Rudiger S., Schonfeld H.J., Schirra C., Bujard H., Bukau B.
    EMBO J. 15:607-617(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH DNAK AND DNAJ, INDUCTION.
    Strain: K12.
  11. "Escherichia coli proteome analysis using the gene-protein database."
    VanBogelen R.A., Abshire K.Z., Moldover B., Olson E.R., Neidhardt F.C.
    Electrophoresis 18:1243-1251(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY 2D-GEL.
  12. "A sigma32 mutant with a single amino acid change in the highly conserved region 2.2 exhibits reduced core RNA polymerase affinity."
    Joo D.M., Ng N., Calendar R.
    Proc. Natl. Acad. Sci. U.S.A. 94:4907-4912(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RNA POLYMERASE, MUTAGENESIS OF GLN-80.
  13. "Heat shock regulation in the ftsH null mutant of Escherichia coli: dissection of stability and activity control mechanisms of sigma32 in vivo."
    Tatsuta T., Tomoyasu T., Bukau B., Kitagawa M., Mori H., Karata K., Ogura T.
    Mol. Microbiol. 30:583-593(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION, DEGRADATION BY FTSH.
    Strain: K12.
  14. "Translational induction of heat shock transcription factor sigma32: evidence for a built-in RNA thermosensor."
    Morita M.T., Tanaka Y., Kodama T.S., Kyogoku Y., Yanagi H., Yura T.
    Genes Dev. 13:655-665(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION, TRANSLATIONAL THERMOREGULATION.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  15. "Heat-induced synthesis of sigma32 in Escherichia coli: structural and functional dissection of rpoH mRNA secondary structure."
    Morita M., Kanemori M., Yanagi H., Yura T.
    J. Bacteriol. 181:401-410(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION, TRANSLATIONAL THERMOREGULATION.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  16. "The global transcriptional response of Escherichia coli to induced sigma 32 protein involves sigma 32 regulon activation followed by inactivation and degradation of sigma 32 in vivo."
    Zhao K., Liu M., Burgess R.R.
    J. Biol. Chem. 280:17758-17768(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION.
    Strain: K12 / MG1655 / ATCC 47076.
  17. "Effect of anaerobic and stationary phase growth conditions on the heat shock and oxidative stress responses in Escherichia coli K-12."
    Diaz-Acosta A., Sandoval M.L., Delgado-Olivares L., Membrillo-Hernandez J.
    Arch. Microbiol. 185:429-438(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  18. "Regulon and promoter analysis of the E. coli heat-shock factor, sigma32, reveals a multifaceted cellular response to heat stress."
    Nonaka G., Blankschien M., Herman C., Gross C.A., Rhodius V.A.
    Genes Dev. 20:1776-1789(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
    Strain: K12 / MG1655 / ATCC 47076.
  19. "Growth phase- and cell division-dependent activation and inactivation of the {sigma}32 regulon in Escherichia coli."
    Wagner M.A., Zahrl D., Rieser G., Koraimann G.
    J. Bacteriol. 191:1695-1702(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION DURING CELL DIVISION.
    Strain: K12 / MG1655 / ATCC 47076.

Entry informationi

Entry nameiRPOH_ECOLI
AccessioniPrimary (citable) accession number: P0AGB3
Secondary accession number(s): P00580, Q2M7C4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: December 20, 2005
Last modified: October 29, 2014
This is version 84 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

May only be involved in heat shocks that occur during exponential phase of growth under aerobic conditions. Different mechanisms may play a prime role during stationary phase and anaerobic growth (PubMed:16775749).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

External Data

Dasty 3