SIGB_ARATH
ID SIGB_ARATH Reviewed; 572 AA.
AC O22056; O22455; Q8GWC1;
DT 11-JUL-2012, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-1998, sequence version 2.
DT 25-MAY-2022, entry version 153.
DE RecName: Full=RNA polymerase sigma factor sigB;
DE Short=Sigma factor B;
DE Short=Sigma-B;
DE AltName: Full=Protein ABERRANT CHLOROPLAST 1;
DE AltName: Full=RNA polymerase sigma factor sig1;
DE Short=Atsig1;
DE Short=Sigma factor 1;
DE AltName: Full=RNA polymerase sigma factor sig2;
DE Short=Atsig2;
DE Short=Sigma factor 2;
DE AltName: Full=RNA polymerase sigma factor sigA;
DE Short=Sigma factor A;
DE Short=Sigma-A;
DE Flags: Precursor;
GN Name=SIGB; Synonyms=ABC1, SIG1, SIG2, SIGA; OrderedLocusNames=At1g08540;
GN ORFNames=F22O13.2, T27G7.22;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], INDUCTION BY LIGHT, AND GENE
RP FAMILY.
RC STRAIN=cv. Columbia;
RX PubMed=9280303; DOI=10.1016/s0014-5793(97)00906-x;
RA Tanaka K., Tozawa Y., Mochizuki N., Shinozaki K., Nagatani A., Wakasa K.,
RA Takahashi H.;
RT "Characterization of three cDNA species encoding plastid RNA polymerase
RT sigma factors in Arabidopsis thaliana: evidence for the sigma factor
RT heterogeneity in higher plant plastids.";
RL FEBS Lett. 413:309-313(1997).
RN [2]
RP NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, INDUCTION BY LIGHT, AND
RP GENE FAMILY.
RC STRAIN=cv. Columbia; TISSUE=Leaf;
RX PubMed=9405719; DOI=10.1073/pnas.94.26.14948;
RA Isono K., Shimizu M., Yoshimoto K., Niwa Y., Satoh K., Yokota A.,
RA Kobayashi H.;
RT "Leaf-specifically expressed genes for polypeptides destined for
RT chloroplasts with domains of sigma70 factors of bacterial RNA polymerases
RT in Arabidopsis thaliana.";
RL Proc. Natl. Acad. Sci. U.S.A. 94:14948-14953(1997).
RN [3]
RP NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, INDUCTION BY LIGHT, GENE
RP FAMILY, AND NOMENCLATURE.
RC STRAIN=cv. Columbia; TISSUE=Seedling hypocotyl;
RX PubMed=10946105; DOI=10.1016/s0300-9084(00)00611-8;
RA Allison L.A.;
RT "The role of sigma factors in plastid transcription.";
RL Biochimie 82:537-548(2000).
RN [4]
RP NUCLEOTIDE SEQUENCE [MRNA], AND FUNCTION.
RX PubMed=10734058; DOI=10.1074/jbc.275.13.9215;
RA Hakimi M.-A., Privat I., Valay J.-G., Lerbs-Mache S.;
RT "Evolutionary conservation of C-terminal domains of primary sigma(70)-type
RT transcription factors between plants and bacteria.";
RL J. Biol. Chem. 275:9215-9221(2000).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(2000).
RN [6]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [7]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=11910074; DOI=10.1126/science.1071006;
RA Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T.,
RA Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y.,
RA Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K.,
RA Shinagawa A., Shinozaki K.;
RT "Functional annotation of a full-length Arabidopsis cDNA collection.";
RL Science 296:141-145(2002).
RN [8]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Bautista V.R., Kim C.J., Chen H., Wu S.Y., De Los Reyes C., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases.
RN [9]
RP SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AND INDUCTION BY LIGHT.
RX PubMed=10555304; DOI=10.1093/oxfordjournals.pcp.a029612;
RA Kanamaru K., Fujiwara M., Seki M., Katagiri T., Nakamura M., Mochizuki N.,
RA Nagatani A., Shinozaki K., Tanaka K., Takahashi H.;
RT "Plastidic RNA polymerase sigma factors in Arabidopsis.";
RL Plant Cell Physiol. 40:832-842(1999).
RN [10]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RC STRAIN=cv. Wassilewskija;
RX PubMed=11094163; DOI=10.1016/s0014-5793(00)02216-x;
RA Shirano Y., Shimada H., Kanamaru K., Fujiwara M., Tanaka K., Takahashi H.,
RA Unno K., Sato S., Tabata S., Hayashi H., Miyake C., Yokota A., Shibata D.;
RT "Chloroplast development in Arabidopsis thaliana requires the nuclear-
RT encoded transcription factor sigma B.";
RL FEBS Lett. 485:178-182(2000).
RN [11]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RX PubMed=11673617; DOI=10.1093/pcp/pce155;
RA Kanamaru K., Nagashima A., Fujiwara M., Shimada H., Shirano Y.,
RA Nakabayashi K., Shibata D., Tanaka K., Takahashi H.;
RT "An Arabidopsis sigma factor (SIG2)-dependent expression of plastid-encoded
RT tRNAs in chloroplasts.";
RL Plant Cell Physiol. 42:1034-1043(2001).
RN [12]
RP INDUCTION BY LIGHT.
RC STRAIN=cv. Columbia;
RX PubMed=11959137; DOI=10.1016/s0014-5793(02)02538-3;
RA Tsunoyama Y., Morikawa K., Shiina T., Toyoshima Y.;
RT "Blue light specific and differential expression of a plastid sigma factor,
RT Sig5 in Arabidopsis thaliana.";
RL FEBS Lett. 516:225-228(2002).
RN [13]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RC STRAIN=cv. Wassilewskija;
RX PubMed=14654684; DOI=10.1093/nar/gkg935;
RA Hanaoka M., Kanamaru K., Takahashi H., Tanaka K.;
RT "Molecular genetic analysis of chloroplast gene promoters dependent on
RT SIG2, a nucleus-encoded sigma factor for the plastid-encoded RNA
RT polymerase, in Arabidopsis thaliana.";
RL Nucleic Acids Res. 31:7090-7098(2003).
RN [14]
RP FUNCTION, TISSUE SPECIFICITY, INDUCTION BY IMBIBITION AND LIGHT, AND
RP SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia;
RX PubMed=12602869; DOI=10.1023/a:1022095017355;
RA Privat I., Hakimi M.-A., Buhot L., Favory J.-J., Mache-Lerbs S.;
RT "Characterization of Arabidopsis plastid sigma-like transcription factors
RT SIG1, SIG2 and SIG3.";
RL Plant Mol. Biol. 51:385-399(2003).
RN [15]
RP FUNCTION, AND TISSUE SPECIFICITY.
RC STRAIN=cv. Columbia;
RX PubMed=14976253; DOI=10.1073/pnas.0308362101;
RA Tsunoyama Y., Ishizaki Y., Morikawa K., Kobori M., Nakahira Y., Takeba G.,
RA Toyoshima Y., Shiina T.;
RT "Blue light-induced transcription of plastid-encoded psbD gene is mediated
RT by a nuclear-encoded transcription initiation factor, AtSig5.";
RL Proc. Natl. Acad. Sci. U.S.A. 101:3304-3309(2004).
RN [16]
RP TISSUE SPECIFICITY.
RC STRAIN=cv. Columbia;
RX PubMed=15807777; DOI=10.1111/j.1365-313x.2005.02362.x;
RA Ishizaki Y., Tsunoyama Y., Hatano K., Ando K., Kato K., Shinmyo A.,
RA Kobori M., Takeba G., Nakahira Y., Shiina T.;
RT "A nuclear-encoded sigma factor, Arabidopsis SIG6, recognizes sigma-70 type
RT chloroplast promoters and regulates early chloroplast development in
RT cotyledons.";
RL Plant J. 42:133-144(2005).
RN [17]
RP INDUCTION BY LIGHT.
RX PubMed=18532976; DOI=10.1111/j.1365-313x.2008.03567.x;
RA Onda Y., Yagi Y., Saito Y., Takenaka N., Toyoshima Y.;
RT "Light induction of Arabidopsis SIG1 and SIG5 transcripts in mature leaves:
RT differential roles of cryptochrome 1 and cryptochrome 2 and dual function
RT of SIG5 in the recognition of plastid promoters.";
RL Plant J. 55:968-978(2008).
CC -!- FUNCTION: Required for the transition of plastids into chloroplasts by
CC coordinating nuclear and chloroplastic genomes under light conditions.
CC Sigma factors are initiation factors that promote the attachment of
CC plastid-encoded RNA polymerase (PEP) to specific initiation sites and
CC are then released. Promotes the biosynthesis of plastid-encoded tRNAs
CC (e.g. trnE-UUC and trnV-UAC). {ECO:0000269|PubMed:10734058,
CC ECO:0000269|PubMed:11094163, ECO:0000269|PubMed:11673617,
CC ECO:0000269|PubMed:12602869, ECO:0000269|PubMed:14654684,
CC ECO:0000269|PubMed:14976253}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast
CC {ECO:0000269|PubMed:10555304, ECO:0000269|PubMed:12602869}.
CC -!- TISSUE SPECIFICITY: Highly expressed in cotyledons, to a lesser extent
CC in leaves, sepals and siliques, and barely expressed in roots. Present
CC in seedlings. {ECO:0000269|PubMed:10555304,
CC ECO:0000269|PubMed:10946105, ECO:0000269|PubMed:12602869,
CC ECO:0000269|PubMed:14976253, ECO:0000269|PubMed:15807777,
CC ECO:0000269|PubMed:9405719}.
CC -!- INDUCTION: Induced by red light, especially after dark adaptation.
CC Moderately induced by blue light. Induced after two days of imbibition.
CC {ECO:0000269|PubMed:10555304, ECO:0000269|PubMed:10946105,
CC ECO:0000269|PubMed:11959137, ECO:0000269|PubMed:12602869,
CC ECO:0000269|PubMed:18532976, ECO:0000269|PubMed:9280303,
CC ECO:0000269|PubMed:9405719}.
CC -!- DISRUPTION PHENOTYPE: Pale green seedlings exhibiting a strong
CC reduction in plastid-encoded tRNA levels. Aberrant chloroplast
CC development; normal etioplast in darkness, but abnormal chloroplast in
CC light characterized by small size, poor thylakoid membranes and stacked
CC lamellae. {ECO:0000269|PubMed:11094163, ECO:0000269|PubMed:11673617,
CC ECO:0000269|PubMed:14654684}.
CC -!- SIMILARITY: Belongs to the sigma-70 factor family. {ECO:0000305}.
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; AB004293; BAA22427.1; -; mRNA.
DR EMBL; AB019943; BAA82449.1; -; Genomic_DNA.
DR EMBL; AB004820; BAA24825.1; -; mRNA.
DR EMBL; AF015543; AAB69385.1; -; mRNA.
DR EMBL; Y15362; CAA75584.1; -; mRNA.
DR EMBL; AC003981; AAF99752.1; -; Genomic_DNA.
DR EMBL; AC006932; AAF22897.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE28303.1; -; Genomic_DNA.
DR EMBL; AK118947; BAC43527.1; -; mRNA.
DR EMBL; BT030346; ABO38759.1; -; mRNA.
DR PIR; T00707; T00707.
DR RefSeq; NP_172330.1; NM_100727.4.
DR AlphaFoldDB; O22056; -.
DR SMR; O22056; -.
DR BioGRID; 22617; 1.
DR IntAct; O22056; 1.
DR STRING; 3702.AT1G08540.1; -.
DR PaxDb; O22056; -.
DR PRIDE; O22056; -.
DR ProteomicsDB; 234545; -.
DR EnsemblPlants; AT1G08540.1; AT1G08540.1; AT1G08540.
DR GeneID; 837376; -.
DR Gramene; AT1G08540.1; AT1G08540.1; AT1G08540.
DR KEGG; ath:AT1G08540; -.
DR Araport; AT1G08540; -.
DR TAIR; locus:2025650; AT1G08540.
DR eggNOG; ENOG502QVXR; Eukaryota.
DR HOGENOM; CLU_014793_0_0_1; -.
DR InParanoid; O22056; -.
DR OMA; TLCKDKM; -.
DR OrthoDB; 1191135at2759; -.
DR PhylomeDB; O22056; -.
DR PRO; PR:O22056; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; O22056; baseline and differential.
DR Genevisible; O22056; AT.
DR GO; GO:0009507; C:chloroplast; IDA:UniProtKB.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0016987; F:sigma factor activity; IMP:UniProtKB.
DR GO; GO:0071482; P:cellular response to light stimulus; IMP:UniProtKB.
DR GO; GO:0009658; P:chloroplast organization; IMP:UniProtKB.
DR GO; GO:0006352; P:DNA-templated transcription, initiation; IDA:UniProtKB.
DR GO; GO:2001141; P:regulation of RNA biosynthetic process; IMP:UniProtKB.
DR GO; GO:0010114; P:response to red light; IEP:TAIR.
DR GO; GO:0006399; P:tRNA metabolic process; IMP:UniProtKB.
DR Gene3D; 1.10.10.10; -; 2.
DR InterPro; IPR014284; RNA_pol_sigma-70_dom.
DR InterPro; IPR000943; RNA_pol_sigma70.
DR InterPro; IPR007627; RNA_pol_sigma70_r2.
DR InterPro; IPR007624; RNA_pol_sigma70_r3.
DR InterPro; IPR007630; RNA_pol_sigma70_r4.
DR InterPro; IPR013325; RNA_pol_sigma_r2.
DR InterPro; IPR013324; RNA_pol_sigma_r3/r4-like.
DR InterPro; IPR016262; RNA_pol_sigma_SigB/C/D/F.
DR InterPro; IPR036388; WH-like_DNA-bd_sf.
DR Pfam; PF04542; Sigma70_r2; 1.
DR Pfam; PF04539; Sigma70_r3; 1.
DR Pfam; PF04545; Sigma70_r4; 1.
DR PIRSF; PIRSF000767; RNA_pol_sigma_SigB/C/D; 1.
DR PRINTS; PR00046; SIGMA70FCT.
DR SUPFAM; SSF88659; SSF88659; 2.
DR SUPFAM; SSF88946; SSF88946; 1.
DR TIGRFAMs; TIGR02937; sigma70-ECF; 1.
DR PROSITE; PS00716; SIGMA70_2; 1.
PE 2: Evidence at transcript level;
KW Chloroplast; DNA-binding; Plastid; Reference proteome; Sigma factor;
KW Transcription; Transcription regulation; Transit peptide.
FT TRANSIT 1..39
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 40..572
FT /note="RNA polymerase sigma factor sigB"
FT /id="PRO_0000418094"
FT DNA_BIND 530..549
FT /note="H-T-H motif"
FT /evidence="ECO:0000250"
FT REGION 215..249
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 360..373
FT /note="Polymerase core binding"
FT CONFLICT 136
FT /note="N -> Y (in Ref. 7; BAC43527)"
FT /evidence="ECO:0000305"
FT CONFLICT 209
FT /note="S -> G (in Ref. 7; BAC43527)"
FT /evidence="ECO:0000305"
FT CONFLICT 270
FT /note="S -> SKL (in Ref. 3; AAB69385)"
FT /evidence="ECO:0000305"
FT CONFLICT 466
FT /note="Q -> R (in Ref. 3; AAB69385)"
FT /evidence="ECO:0000305"
FT CONFLICT 488
FT /note="S -> P (in Ref. 7; BAC43527)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 572 AA; 64054 MW; 421A65450CB45DC6 CRC64;
MSSCLLPQFK CPPDSFSIHF RTSFCAPKHN KGSVFFQPQC AVSTSPALLT SMLDVAKLRL
PSFDTDSDSL ISDRQWTYTR PDGPSTEAKY LEALASETLL TSDEAVVVAA AAEAVALARA
AVKVAKDATL FKNSNNTNLL TSSTADKRSK WDQFTEKERA GILGHLAVSD NGIVSDKITA
SASNKESIGD LESEKQEEVE LLEEQPSVSL AVRSTRQTER KARRAKGLEK TASGIPSVKT
GSSPKKKRLV AQEVDHNDPL RYLRMTTSSS KLLTVREEHE LSAGIQDLLK LERLQTELTE
RSGRQPTFAQ WASAAGVDQK SLRQRIHHGT LCKDKMIKSN IRLVISIAKN YQGAGMNLQD
LVQEGCRGLV RGAEKFDATK GFKFSTYAHW WIKQAVRKSL SDQSRMIRLP FHMVEATYRV
KEARKQLYSE TGKHPKNEEI AEATGLSMKR LMAVLLSPKP PRSLDQKIGM NQNLKPSEVI
ADPEAVTSED ILIKEFMRQD LDKVLDSLGT REKQVIRWRF GMEDGRMKTL QEIGEMMGVS
RERVRQIESS AFRKLKNKKR NNHLQQYLVA QS
