SIGE sigma factor E [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: SIGE
Official Full Name: sigma factor E
Primary source: TAIR:AT5G24120
Locus tag: AT5G24120
See related: Araport:AT5G24120
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: ATSIG5; MLE8.4; MLE8_4; SIG5; SIGMA FACTOR; SIGMA FACTOR 5; sigma factor E
Summary: Encodes a specialized sigma factor that functions in regulation of plastid genes and is responsible for the light-dependent transcription at the psbD LRP. Activation of SIG5 is dependent upon blue light and mediated by cryptochromes.
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Genomic context

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See SIGE in Genome Data Viewer

Location:: chromosome: 5

Exon count:: 8

Sequence:: Chromosome: 5; NC_003076.8 (8157151..8160343, complement)

Chromosome 5 - NC_003076.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003076.8

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results suggest that AtSIG5 plays a significant role in differential transcription of reaction center genes in mature chloroplasts.
Title: Selective Activation of Chloroplast psbD Light-Responsive Promoter and psaA/B Promoter in Transplastomic Tobacco Plants Overexpressing Arabidopsis Sigma Factor AtSIG5.
the circadian regulation of chloroplast transcription by SIG5 was predominantly dependent on blue light and cryptochrome.
Title: Integration of light and circadian signals that regulate chloroplast transcription by a nuclear-encoded sigma factor.
The role of SIG5 protein in the transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes
Title: Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5.
nuclear-encoded SIGMA FACTOR5 (SIG5) controls circadian rhythms of transcription of several chloroplast genes, revealing one pathway by which the nuclear-encoded circadian oscillator controls rhythms of chloroplast gene expression.
Title: Circadian control of chloroplast transcription by a nuclear-encoded timing signal.
Cryptochromes 1 and 2 mediate SIG5 transcription at different light wavelengths. SIG5 activates the psbD blue-light-responsive promoter.
Title: Light induction of Arabidopsis SIG1 and SIG5 transcripts in mature leaves: differential roles of cryptochrome 1 and cryptochrome 2 and dual function of SIG5 in the recognition of plastid promoters.
The NEP (the (phage-type) plastid RNA polymerase) promoter cluster can help maintain RNA synthesis in situations where no functional sigma factor is available for PEP (the bacterial-type plastid RNA polymerase).
Title: A promoter switch that can rescue a plant sigma factor mutant.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_001343842.1

Supported by ESTs:

NM_122317.4

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sigma factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables sigma factor activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription initiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within DNA-templated transcription initiation	TAS Traceable Author Statement more info	PubMed
involved_in cellular response to blue light	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within cellular response to salt stress	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chloroplast organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryo sac development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in photosystem II assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of RNA biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to blue light	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within response to far red light	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to red light	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in chloroplast	IDA Inferred from Direct Assay more info	PubMed
located_in chloroplast	ISM Inferred from Sequence Model more info
located_in chloroplast	ISS Inferred from Sequence or Structural Similarity more info
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: sigma factor E

NP_197800.1

sigma factor E (SIGE); CONTAINS InterPro DOMAIN/s: RNA polymerase sigma factor, region 2 (InterPro:IPR013325), Winged helix-turn-helix transcription repressor DNA-binding (InterPro:IPR011991), RNA polymerase sigma-70 region 3 (InterPro:IPR007624), RNA polymerase sigma-70 (InterPro:IPR014284), RNA polymerase sigma factor, region 3/4 (InterPro:IPR013324), RNA polymerase sigma-70 region 2 (InterPro:IPR007627), RNA polymerase sigma-70 region 4 (InterPro:IPR007630), RNA polymerase sigma-70 factor (InterPro:IPR000943); BEST Arabidopsis thaliana protein match is: RNApolymerase sigma subunit 2 (TAIR:AT1G08540.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003076.8 Reference assembly

Range

8157151..8160343 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001343841.1 → NP_001330409.1 sigma factor E [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/Swiss-Prot

Q56Y78, Q94AW4, Q9ZNX9

UniProtKB/TrEMBL

A0A178URC9, A0A5S9Y7A3

Conserved Domains (1) summary

PRK07406
Location:238 → 516

PRK07406; RNA polymerase sigma factor RpoD; Validated
NM_122317.4 → NP_197800.1 sigma factor E [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_197800.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q56Y78, Q94AW4, Q9ZNX9

UniProtKB/TrEMBL

A0A178URC9, A0A5S9Y7A3

Conserved Domains (1) summary

PRK07406
Location:238 → 516

PRK07406; RNA polymerase sigma factor RpoD; Validated
NM_001343842.1 → NP_001330408.1 sigma factor E [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/Swiss-Prot

Q56Y78, Q94AW4, Q9ZNX9

UniProtKB/TrEMBL

A0A178URC9, A0A5S9Y7A3

Conserved Domains (1) summary

PRK07406
Location:238 → 516

PRK07406; RNA polymerase sigma factor RpoD; Validated