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Protein

ECF RNA polymerase sigma factor SigM

Gene

sigM

Organism
Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. Extracytoplasmic function (ECF) sigma factors are held in an inactive form by an anti-sigma factor (RsaM, AC L7N5D7) until released by regulated intramembrane proteolysis (Probable). This sigma factor is required for the synthesis of surface or secreted molecules.Curated1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi156 – 17520H-T-H motifBy similarityAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • DNA-templated transcription, initiation Source: InterPro
  • positive regulation of transcription, DNA-templated Source: MTBBASE
  • response to water Source: MTBBASE
  • response to xenobiotic stimulus Source: MTBBASE
Complete GO annotation...

Keywords - Molecular functioni

Sigma factor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciMTBRV:RV3911-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
ECF RNA polymerase sigma factor SigM
Short name:
ECF sigma factor SigM
Alternative name(s):
Alternative RNA polymerase sigma factor SigM
RNA polymerase sigma-M factor
Short name:
Sigma-M factor
Gene namesi
Name:sigM
Ordered Locus Names:Rv3911
OrganismiMycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Taxonomic identifieri83332 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium tuberculosis complex
Proteomesi
  • UP000001584 Componenti: Chromosome

Organism-specific databases

TubercuListiRv3911.

Subcellular locationi

GO - Cellular componenti

  • plasma membrane Source: MTBBASE
Complete GO annotation...

Pathology & Biotechi

Disruption phenotypei

No effect on growth in culture, or in isolated macrophages; infected guinea pigs have a partially attenuated lung infection.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 196196ECF RNA polymerase sigma factor SigMPRO_0000420400Add
BLAST

Proteomic databases

PaxDbiO53590.

Expressioni

Inductioni

Constitutively low in all growth stages; repressed by detergent (3.5-fold). Induced by WhiB5.3 Publications

Interactioni

Subunit structurei

Interacts transiently with the RNA polymerase catalytic core formed by RpoA, RpoB, RpoC and RpoZ (2 alpha, 1 beta, 1 beta' and 1 omega subunit) to form the RNA polymerase holoenzyme that can initiate transcription. Interacts (via sigma-70 factor domain-4) with anti-sigma-M factor RsmA (AC L7N5D7) (By similarity).By similarity

Protein-protein interaction databases

STRINGi83332.Rv3911.

Structurei

3D structure databases

ProteinModelPortaliO53590.
SMRiO53590. Positions 20-178.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni39 – 10567Sigma-70 factor domain-2Add
BLAST
Regioni130 – 18152Sigma-70 factor domain-4Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi63 – 664Polymerase core bindingSequence analysis

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. Interactions between sigma-70 factor domain-4 and anti-sigma factors prevents interaction of sigma factors with the RNA polymerase catalytic core (By similarity).By similarity

Sequence similaritiesi

Belongs to the sigma-70 factor family. ECF subfamily.Curated

Phylogenomic databases

HOGENOMiHOG000094755.
InParanoidiO53590.
KOiK03088.
OrthoDBiEOG6ZD6DW.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR007627. RNA_pol_sigma70_r2.
IPR013249. RNA_pol_sigma70_r4_t2.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF08281. Sigma70_r4_2. 1 hit.
[Graphical view]
SUPFAMiSSF88659. SSF88659. 1 hit.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02937. sigma70-ECF. 1 hit.

Sequencei

Sequence statusi: Complete.

O53590-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPPPIGYCPA VGFGGRHERS DAELLAAHVA GDRYAFDQLF RRHHRQLHRL
60 70 80 90 100
ARLTSRTSED ADDALQDAML SAHRGAGSFR YDAAVSSWLH RIVVNACLDR
110 120 130 140 150
LRRAKAHPTA PLEDVYPVAD RTAQVETAIA VQRALMRLPV EQRAAVVAVD
160 170 180 190
MQGYSIADTA RMLGVAEGTV KSRCARARAR LARLLGYLNT GVNIRR
Length:196
Mass (Da):21,649
Last modified:October 16, 2013 - v2
Checksum:i5C1175E850ABA298
GO

Sequence cautioni

The sequence CCP46740.1 differs from that shown. Reason: Frameshift at position 160. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL123456 Genomic DNA. Translation: CCP46740.1. Frameshift.
PIRiG70850.
RefSeqiNP_218428.1. NC_000962.3.
WP_010886185.1. NC_000962.3.

Genome annotation databases

EnsemblBacteriaiCCP46740; CCP46740; Rv3911.
GeneIDi886246.
KEGGimtu:Rv3911.
mtv:RVBD_3911.
PATRICi18157318. VBIMycTub87468_4361.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL123456 Genomic DNA. Translation: CCP46740.1. Frameshift.
PIRiG70850.
RefSeqiNP_218428.1. NC_000962.3.
WP_010886185.1. NC_000962.3.

3D structure databases

ProteinModelPortaliO53590.
SMRiO53590. Positions 20-178.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi83332.Rv3911.

Proteomic databases

PaxDbiO53590.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCCP46740; CCP46740; Rv3911.
GeneIDi886246.
KEGGimtu:Rv3911.
mtv:RVBD_3911.
PATRICi18157318. VBIMycTub87468_4361.

Organism-specific databases

TubercuListiRv3911.

Phylogenomic databases

HOGENOMiHOG000094755.
InParanoidiO53590.
KOiK03088.
OrthoDBiEOG6ZD6DW.

Enzyme and pathway databases

BioCyciMTBRV:RV3911-MONOMER.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR007627. RNA_pol_sigma70_r2.
IPR013249. RNA_pol_sigma70_r4_t2.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF08281. Sigma70_r4_2. 1 hit.
[Graphical view]
SUPFAMiSSF88659. SSF88659. 1 hit.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02937. sigma70-ECF. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 25618 / H37Rv.
  2. "Differential expression of 10 sigma factor genes in Mycobacterium tuberculosis."
    Manganelli R., Dubnau E., Tyagi S., Kramer F.R., Smith I.
    Mol. Microbiol. 31:715-724(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
    Strain: ATCC 25618 / H37Rv.
  3. "Mycobacterium tuberculosis SigM positively regulates Esx secreted protein and nonribosomal peptide synthetase genes and down regulates virulence-associated surface lipid synthesis."
    Raman S., Puyang X., Cheng T.Y., Young D.C., Moody D.B., Husson R.N.
    J. Bacteriol. 188:8460-8468(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION, DISRUPTION PHENOTYPE.
    Strain: ATCC 25618 / H37Rv.
  4. "Examination of Mycobacterium tuberculosis sigma factor mutants using low-dose aerosol infection of guinea pigs suggests a role for SigC in pathogenesis."
    Karls R.K., Guarner J., McMurray D.N., Birkness K.A., Quinn F.D.
    Microbiology 152:1591-1600(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
    Strain: ATCC 25618 / H37Rv.
  5. "targetTB: a target identification pipeline for Mycobacterium tuberculosis through an interactome, reactome and genome-scale structural analysis."
    Raman K., Yeturu K., Chandra N.
    BMC Syst. Biol. 2:109-109(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION AS A DRUG TARGET [LARGE SCALE ANALYSIS].
  6. Cited for: INDUCTION.
    Strain: ATCC 25618 / H37Rv.

Entry informationi

Entry nameiSIGM_MYCTU
AccessioniPrimary (citable) accession number: O53590
Secondary accession number(s): L0TH42
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2012
Last sequence update: October 16, 2013
Last modified: March 16, 2016
This is version 100 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Was identified as a high-confidence drug target.
Extracytoplasmic function (ECF) sigma factors are held in an inactive form by an anti-sigma factor until released by regulated intramembrane proteolysis (RIP). RIP occurs when an extracytoplasmic signal triggers a concerted proteolytic cascade to transmit information and elicit cellular responses. The membrane-spanning anti-sigma factor is first cut extracytoplasmically (site-1 protease, S1P), then within the membrane itself (site-2 protease, S2P, Rip1), while cytoplasmic proteases finish degrading the regulatory protein, liberating SigM (Probable).Curated

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh
    Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh: entries and gene names
  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.