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Protein

RNA polymerase sigma factor sigA

Gene

SIGA

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Essential protein. Sigma factors are initiation factors that promote the attachment of plastid-encoded RNA polymerase (PEP) to specific initiation sites and are then released. Controls the transcription of the psaA gene and thus modulates photosystem stoichiometry. Thereby maintains a harmonious electron flow and photosynthetic efficiency.2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi461 – 480H-T-H motifBy similarityAdd BLAST20

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • plastid sigma factor activity Source: UniProtKB
  • sigma factor activity Source: TAIR
  • transcription factor activity, sequence-specific DNA binding Source: InterPro

GO - Biological processi

  • cellular response to light stimulus Source: UniProtKB
  • cellular response to redox state Source: UniProtKB
  • DNA-templated transcription, initiation Source: UniProtKB
  • photosystem stoichiometry adjustment Source: UniProtKB
  • regulation of RNA biosynthetic process Source: UniProtKB
  • regulation of transcription, DNA-templated Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Sigma factor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor sigA
Short name:
Sigma factor A
Short name:
Sigma-A
Alternative name(s):
RNA polymerase sigma factor sig1
Short name:
Atsig1
Short name:
Sigma factor 1
RNA polymerase sigma factor sig2
Short name:
Atsig2
Short name:
Sigma factor 2
RNA polymerase sigma factor sigB
Short name:
Sigma factor B
Short name:
Sigma-B
Gene namesi
Name:SIGA
Synonyms:RPOD1, SIG1, SIG2, SIGB
Ordered Locus Names:At1g64860
ORF Names:F13O11.16
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G64860.

Subcellular locationi

GO - Cellular componenti

  • chloroplast Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

Pathology & Biotechi

Disruption phenotypei

Lethal.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi170T → V: Increased transcription induction of psaA gene. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 23ChloroplastSequence analysisAdd BLAST23
ChainiPRO_000041809324 – 502RNA polymerase sigma factor sigAAdd BLAST479

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei170Phosphothreonine1 Publication1

Post-translational modificationi

The phosphorylation of Thr-170 mediated by oxidative conditions of plastoquinone (PQ) changes the promoter specificity, selectively inhibiting the transcription of the psaA gene, which encodes a PS-I protein. Phosphorylation of the holoenzyme occurs in the dark. This phosphorylation in response to plastoquinone redox state modification is mediated by CSK.2 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiO24629.

PTM databases

iPTMnetiO24629.

Expressioni

Tissue specificityi

Highly expressed in leaves, and to a lesser extent in roots. Expressed in old seedlings (8 days), cotyledons, hypocotyls, leaves, sepals and siliques.4 Publications

Inductioni

Induced by light, especially after dark adaptation. Induced by both red light (660 nm) and blue light (470 nm) in dark-adapted plants in a cryptochrome-dependent manner (i.e. requiring CRY1 and CRY2). Induced after three days of imbibition. Promoter specificity is modified by phosphorylation of Thr-170. Suppressed in response to infection with the necrotrophic bacterial pathogen Pseudomonas syringae.8 Publications

Gene expression databases

GenevisibleiO24629. AT.

Interactioni

Subunit structurei

Interacts with SIB1 in chloroplast (PubMed:11943170). Binds to CSK (PubMed:23754813).2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SIB1Q9LDH13EBI-2118157,EBI-2118209

Protein-protein interaction databases

BioGridi28015. 2 interactors.
IntActiO24629. 2 interactors.
MINTiMINT-8294379.
STRINGi3702.AT1G64860.1.

Structurei

3D structure databases

ProteinModelPortaliO24629.
SMRiO24629.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi287 – 300Polymerase core bindingAdd BLAST14

Sequence similaritiesi

Belongs to the sigma-70 factor family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiENOG410IH2C. Eukaryota.
COG0568. LUCA.
HOGENOMiHOG000242599.
InParanoidiO24629.
KOiK03086.
OMAiKECLTWE.
OrthoDBiEOG09360E4W.
PhylomeDBiO24629.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O24629-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MATAAVIGLN TGKRLLSSSF YHSDVTEKFL SVNDHCSSQY HIASTKSGIT
60 70 80 90 100
AKKASNYSPS FPSSNRHTQS AKALKESVDV ASTEKPWLPN GTDKELEEEC
110 120 130 140 150
YDDDDLISHS VEAILLLQKS MLEKSWNLSF EKAVSSEYPG KGTIRKKKIP
160 170 180 190 200
VITCSGISAR QRRIGAKKKT NMTHVKAVSD VSSGKQVRGY VKGVISEDVL
210 220 230 240 250
SHVEVVRLSK KIKSGLRLDD HKSRLKDRLG CEPSDEQLAV SLKISRAELQ
260 270 280 290 300
AWLMECHLAR EKLAMSNVRL VMSIAQRYDN LGAEMSDLVQ GGLIGLLRGI
310 320 330 340 350
EKFDSSKGFR ISTYVYWWIR QGVSRALVDN SRTLRLPTHL HERLGLIRNA
360 370 380 390 400
KLRLQEKGIT PSIDRIAESL NMSQKKVRNA TEAVSKVFSL DRDAFPSLNG
410 420 430 440 450
LPGETHHSYI ADTRLENNPW HGYDDLALKE EVSKLISATL GEREKEIIRL
460 470 480 490 500
YYGLDKECLT WEDISKRIGL SRERVRQVGL VALEKLKHAA RKRKMEAMIL

KN
Length:502
Mass (Da):56,400
Last modified:January 1, 1998 - v1
Checksum:i4E45AF5159FBF3DD
GO
Isoform 2 (identifier: O24629-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     469-502: GLSRERVRQVGLVALEKLKHAARKRKMEAMILKN → IEREGETGRACGTGETKTRSEEEKNGGNDP

Note: Derived from EST data. No experimental confirmation available.
Show »
Length:498
Mass (Da):55,677
Checksum:iB1644E28E6833CF2
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti58S → R in AAB81958 (Ref. 5) Curated1
Sequence conflicti161Q → P in BAA22214 (PubMed:9405719).Curated1
Sequence conflicti203V → A in AAB81958 (Ref. 5) Curated1
Sequence conflicti279D → N in AAG40388 (PubMed:14593172).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_043969469 – 502GLSRE…MILKN → IEREGETGRACGTGETKTRS EEEKNGGNDP in isoform 2. CuratedAdd BLAST34

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D89993 mRNA. Translation: BAA22421.1.
AB019942 Genomic DNA. Translation: BAA82448.1.
AB004821 mRNA. Translation: BAA22214.1.
AF015542 mRNA. Translation: AAB69384.1.
Y14252 mRNA. Translation: CAA74640.1.
AF024590 mRNA. Translation: AAB81958.1.
AC006193 Genomic DNA. Translation: AAD38260.1.
CP002684 Genomic DNA. Translation: AEE34298.1.
CP002684 Genomic DNA. Translation: AEE34299.1.
AF325036 mRNA. Translation: AAG40388.1.
AY062526 mRNA. Translation: AAL32604.1.
AY093306 mRNA. Translation: AAM13305.1.
AK316773 mRNA. Translation: BAH19492.1.
Y14567 mRNA. Translation: CAA74896.1.
PIRiH96671.
T52642.
RefSeqiNP_176666.1. NM_105160.3. [O24629-1]
UniGeneiAt.25556.

Genome annotation databases

EnsemblPlantsiAT1G64860.1; AT1G64860.1; AT1G64860. [O24629-1]
GeneIDi842794.
GrameneiAT1G64860.1; AT1G64860.1; AT1G64860.
KEGGiath:AT1G64860.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D89993 mRNA. Translation: BAA22421.1.
AB019942 Genomic DNA. Translation: BAA82448.1.
AB004821 mRNA. Translation: BAA22214.1.
AF015542 mRNA. Translation: AAB69384.1.
Y14252 mRNA. Translation: CAA74640.1.
AF024590 mRNA. Translation: AAB81958.1.
AC006193 Genomic DNA. Translation: AAD38260.1.
CP002684 Genomic DNA. Translation: AEE34298.1.
CP002684 Genomic DNA. Translation: AEE34299.1.
AF325036 mRNA. Translation: AAG40388.1.
AY062526 mRNA. Translation: AAL32604.1.
AY093306 mRNA. Translation: AAM13305.1.
AK316773 mRNA. Translation: BAH19492.1.
Y14567 mRNA. Translation: CAA74896.1.
PIRiH96671.
T52642.
RefSeqiNP_176666.1. NM_105160.3. [O24629-1]
UniGeneiAt.25556.

3D structure databases

ProteinModelPortaliO24629.
SMRiO24629.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi28015. 2 interactors.
IntActiO24629. 2 interactors.
MINTiMINT-8294379.
STRINGi3702.AT1G64860.1.

PTM databases

iPTMnetiO24629.

Proteomic databases

PaxDbiO24629.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G64860.1; AT1G64860.1; AT1G64860. [O24629-1]
GeneIDi842794.
GrameneiAT1G64860.1; AT1G64860.1; AT1G64860.
KEGGiath:AT1G64860.

Organism-specific databases

TAIRiAT1G64860.

Phylogenomic databases

eggNOGiENOG410IH2C. Eukaryota.
COG0568. LUCA.
HOGENOMiHOG000242599.
InParanoidiO24629.
KOiK03086.
OMAiKECLTWE.
OrthoDBiEOG09360E4W.
PhylomeDBiO24629.

Miscellaneous databases

PROiO24629.

Gene expression databases

GenevisibleiO24629. AT.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSIGA_ARATH
AccessioniPrimary (citable) accession number: O24629
Secondary accession number(s): F4I8A3
, O22057, O22576, Q9FPH1, Q9T0P0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 11, 2012
Last sequence update: January 1, 1998
Last modified: November 30, 2016
This is version 132 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: 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.