SIGA_ORYSJ
ID SIGA_ORYSJ Reviewed; 520 AA.
AC Q0J7T6; A0A0P0XCX8; O48655; Q7EY07; Q7EY08;
DT 10-OCT-2018, integrated into UniProtKB/Swiss-Prot.
DT 13-OCT-2009, sequence version 2.
DT 25-MAY-2022, entry version 107.
DE RecName: Full=RNA polymerase sigma factor sigA {ECO:0000303|PubMed:9421493};
DE Short=Os-sigA {ECO:0000303|PubMed:9421493};
DE Short=Sigma factor A {ECO:0000305};
DE AltName: Full=Protein YELLOW-GREEN LEAF 13 {ECO:0000305};
DE AltName: Full=RNA polymerase sigma factor sig1 {ECO:0000303|PubMed:15118338};
DE Short=OsSIG1 {ECO:0000303|PubMed:15118338};
DE Short=Sigma factor 1 {ECO:0000305};
DE Flags: Precursor;
GN Name=SIGA {ECO:0000303|PubMed:9421493};
GN Synonyms=SIG1 {ECO:0000303|PubMed:15118338}, YGL13 {ECO:0000305};
GN OrderedLocusNames=Os08g0163400 {ECO:0000312|EMBL:BAF22979.2},
GN LOC_Os08g06630 {ECO:0000305};
GN ORFNames=OJ9990_A01.116-1 {ECO:0000312|EMBL:BAC99905.1},
GN OJ9990_A01.116-2 {ECO:0000312|EMBL:BAC99906.1};
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, AND INDUCTION BY LIGHT.
RC STRAIN=cv. Nipponbare;
RX PubMed=9421493; DOI=10.1093/nar/26.2.415;
RA Tozawa Y., Tanaka K., Takahashi H., Wakasa K.;
RT "Nuclear encoding of a plastid sigma factor in rice and its tissue- and
RT light-dependent expression.";
RL Nucleic Acids Res. 26:415-419(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [5]
RP TISSUE SPECIFICITY.
RX PubMed=15118338; DOI=10.1271/bbb.68.973;
RA Kasai K., Kawagishi-Kobayashi M., Teraishi M., Ito Y., Ochi K., Wakasa K.,
RA Tozawa Y.;
RT "Differential expression of three plastidial sigma factors, OsSIG1,
RT OsSIG2A, and OsSIG2B, during leaf development in rice.";
RL Biosci. Biotechnol. Biochem. 68:973-977(2004).
RN [6]
RP FUNCTION, TISSUE SPECIFICITY, AND DISRUPTION PHENOTYPE.
RX PubMed=17651366; DOI=10.1111/j.1365-313x.2007.03216.x;
RA Tozawa Y., Teraishi M., Sasaki T., Sonoike K., Nishiyama Y., Itaya M.,
RA Miyao A., Hirochika H.;
RT "The plastid sigma factor SIG1 maintains photosystem I activity via
RT regulated expression of the psaA operon in rice chloroplasts.";
RL Plant J. 52:124-132(2007).
CC -!- FUNCTION: Sigma factors are initiation factors that promote the
CC attachment of plastid-encoded RNA polymerase (PEP) to specific
CC initiation sites and are then released (Probable). Controls the
CC transcription of the psaA and psaB genes in chloroplast, and thus
CC maintains the abundance of the core protein complex PsaA-PsaB of
CC photosystem I (PSI) in the thylakoid membrane (PubMed:17651366).
CC Maintains PSI activity, sufficient rate of electron transfer from PSII
CC to PSI, and photochemical efficiency (PubMed:17651366).
CC {ECO:0000269|PubMed:17651366, ECO:0000305|PubMed:17651366}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000255}.
CC -!- TISSUE SPECIFICITY: Expressed in shoots (PubMed:9421493). Expressed in
CC the tips of fully elongated leaves (PubMed:15118338). Expressed in leaf
CC blades (PubMed:17651366). {ECO:0000269|PubMed:15118338,
CC ECO:0000269|PubMed:17651366, ECO:0000269|PubMed:9421493}.
CC -!- INDUCTION: Induced by light in dark-grown seedllings.
CC {ECO:0000269|PubMed:9421493}.
CC -!- DISRUPTION PHENOTYPE: Pale-green leaf phenotype due to reduced
CC chlorophyll content. {ECO:0000269|PubMed:17651366}.
CC -!- SIMILARITY: Belongs to the sigma-70 factor family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAC99905.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=BAC99906.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=BAT03964.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=BAT03965.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB005290; BAA24364.1; -; mRNA.
DR EMBL; AP005847; BAC99905.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP005847; BAC99906.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP008214; BAF22979.2; -; Genomic_DNA.
DR EMBL; AP014964; BAT03964.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP014964; BAT03965.1; ALT_SEQ; Genomic_DNA.
DR RefSeq; XP_015648214.1; XM_015792728.1.
DR AlphaFoldDB; Q0J7T6; -.
DR SMR; Q0J7T6; -.
DR STRING; 4530.OS08T0163400-01; -.
DR GeneID; 4344738; -.
DR KEGG; osa:4344738; -.
DR eggNOG; ENOG502QQ9I; Eukaryota.
DR HOGENOM; CLU_014793_3_4_1; -.
DR InParanoid; Q0J7T6; -.
DR OrthoDB; 798196at2759; -.
DR Proteomes; UP000000763; Chromosome 8.
DR Proteomes; UP000059680; Chromosome 8.
DR GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0016987; F:sigma factor activity; IEA:UniProtKB-KW.
DR GO; GO:0006352; P:DNA-templated transcription, initiation; IEA:InterPro.
DR GO; GO:0080005; P:photosystem stoichiometry adjustment; IMP:UniProtKB.
DR GO; GO:2001141; P:regulation of RNA biosynthetic process; IMP:UniProtKB.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; 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; 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 PRINTS; PR00046; SIGMA70FCT.
DR SUPFAM; SSF88659; SSF88659; 2.
DR SUPFAM; SSF88946; SSF88946; 1.
DR TIGRFAMs; TIGR02937; sigma70-ECF; 1.
DR PROSITE; PS00715; SIGMA70_1; 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..66
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 67..520
FT /note="RNA polymerase sigma factor sigA"
FT /id="PRO_0000445235"
FT DNA_BIND 479..498
FT /note="H-T-H motif"
FT /evidence="ECO:0000255"
FT REGION 37..57
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 87..117
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 171..190
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 305..318
FT /note="Polymerase core binding"
FT /evidence="ECO:0000255"
FT COMPBIAS 94..110
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 55..56
FT /note="PP -> A (in Ref. 1; BAA24364)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 520 AA; 57329 MW; BEBFB137CC183273 CRC64;
MTATPAVIGL SAGNRLLSAS FGPTDLMPDK VSLGVGGGGG GGGGGGGGDA MSFAPPAPAT
PKLTAVAAHR LKLSPHGRAQ VMRALRHHSS AAAALAPPPP PPPPPTPSPA SRAAHAHDLE
SSLEAIVLLQ RSMLEKQWEL PFDDDNHAMA IGLAEDDDDT SKATVVVARS SVSARQRRMS
GRRRGRTKNG AAHFAVSPEL IQSRNRIYLR GTVSKELLTH KQVVHLSHKI KDGIWLQQQR
SKLKEKLGNE PSYKQLAHSL KISPPELRSR MHESFLAREM LTMSNLRLVI SIAQKYDNLG
VELADLIQGG LIGLLRGIEK FDASRGFRIS TYVYWWIRQG VSRALAENSK TFRLPTYLHE
RLIAIRGAKY ELEDQGIAPT IENIAGSLNI SEKKVLNATE AVNKVLSLDQ QAFPSLNGLP
GETLHSYIED QNVANDPWHG FEEWYLKEEV NKLLNSTLNE RERDIIRLYH GIGKQCHTWE
DISRQFGLSR ERVRQVGLIA MEKLKHAARR KNLEALLEDY
