PHYC_ORYSI
ID PHYC_ORYSI Reviewed; 1137 AA.
AC A2XM23; P93429; Q7FUM6; Q9M7A9; Q9ZWI9;
DT 11-SEP-2007, integrated into UniProtKB/Swiss-Prot.
DT 11-SEP-2007, sequence version 2.
DT 03-AUG-2022, entry version 87.
DE RecName: Full=Phytochrome C;
GN Name=PHYC; ORFNames=OsI_013116;
OS Oryza sativa subsp. indica (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=39946;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=cv. IR36;
RX PubMed=11094977; DOI=10.1023/a:1006488119301;
RA Basu D., Dehesh K., Schneider-Poetsch H.-J., Harrington S.E., McCouch S.R.,
RA Quail P.H.;
RT "Rice PHYC gene: structure, expression, map position and evolution.";
RL Plant Mol. Biol. 44:27-42(2000).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. 93-11;
RX PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT "The genomes of Oryza sativa: a history of duplications.";
RL PLoS Biol. 3:266-281(2005).
CC -!- FUNCTION: Regulatory photoreceptor which exists in two forms that are
CC reversibly interconvertible by light: the Pr form that absorbs
CC maximally in the red region of the spectrum and the Pfr form that
CC absorbs maximally in the far-red region. Photoconversion of Pr to Pfr
CC induces an array of morphogenic responses, whereas reconversion of Pfr
CC to Pr cancels the induction of those responses. Pfr controls the
CC expression of a number of nuclear genes including those encoding the
CC small subunit of ribulose-bisphosphate carboxylase, chlorophyll A/B
CC binding protein, protochlorophyllide reductase, rRNA, etc. It also
CC controls the expression of its own gene(s) in a negative feedback
CC fashion.
CC -!- SUBUNIT: Homodimer. {ECO:0000250}.
CC -!- PTM: Contains one covalently linked phytochromobilin chromophore.
CC {ECO:0000250}.
CC -!- SIMILARITY: Belongs to the phytochrome family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=EAY91883.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AF141942; AAF66603.1; -; Genomic_DNA.
DR EMBL; CM000128; EAY91883.1; ALT_SEQ; Genomic_DNA.
DR AlphaFoldDB; A2XM23; -.
DR SMR; A2XM23; -.
DR STRING; 39946.A2XM23; -.
DR PRIDE; A2XM23; -.
DR Proteomes; UP000007015; Chromosome 3.
DR GO; GO:0000155; F:phosphorelay sensor kinase activity; IEA:InterPro.
DR GO; GO:0009881; F:photoreceptor activity; IEA:UniProtKB-KW.
DR GO; GO:0042803; F:protein homodimerization activity; IEA:InterPro.
DR GO; GO:0009584; P:detection of visible light; IEA:InterPro.
DR GO; GO:0017006; P:protein-tetrapyrrole linkage; IEA:InterPro.
DR GO; GO:0009585; P:red, far-red light phototransduction; IEA:InterPro.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:InterPro.
DR CDD; cd16932; HATPase_Phy-like; 1.
DR CDD; cd00082; HisKA; 1.
DR CDD; cd00130; PAS; 2.
DR Gene3D; 3.30.450.270; -; 1.
DR Gene3D; 3.30.450.40; -; 1.
DR Gene3D; 3.30.565.10; -; 1.
DR InterPro; IPR003018; GAF.
DR InterPro; IPR029016; GAF-like_dom_sf.
DR InterPro; IPR003594; HATPase_C.
DR InterPro; IPR036890; HATPase_C_sf.
DR InterPro; IPR005467; His_kinase_dom.
DR InterPro; IPR003661; HisK_dim/P.
DR InterPro; IPR000014; PAS.
DR InterPro; IPR035965; PAS-like_dom_sf.
DR InterPro; IPR013654; PAS_2.
DR InterPro; IPR013767; PAS_fold.
DR InterPro; IPR044767; Phy_HATPase-like.
DR InterPro; IPR016132; Phyto_chromo_attachment.
DR InterPro; IPR013516; Phyto_chromo_BS.
DR InterPro; IPR001294; Phytochrome.
DR InterPro; IPR012129; Phytochrome_A-E.
DR InterPro; IPR013515; Phytochrome_cen-reg.
DR InterPro; IPR043150; Phytochrome_PHY.
DR Pfam; PF01590; GAF; 1.
DR Pfam; PF02518; HATPase_c; 1.
DR Pfam; PF00512; HisKA; 1.
DR Pfam; PF00989; PAS; 2.
DR Pfam; PF08446; PAS_2; 1.
DR Pfam; PF00360; PHY; 1.
DR PIRSF; PIRSF000084; Phytochrome; 1.
DR PRINTS; PR01033; PHYTOCHROME.
DR SMART; SM00065; GAF; 1.
DR SMART; SM00387; HATPase_c; 1.
DR SMART; SM00388; HisKA; 1.
DR SMART; SM00091; PAS; 2.
DR SUPFAM; SSF55785; SSF55785; 3.
DR SUPFAM; SSF55874; SSF55874; 1.
DR TIGRFAMs; TIGR00229; sensory_box; 1.
DR PROSITE; PS50109; HIS_KIN; 1.
DR PROSITE; PS50112; PAS; 2.
DR PROSITE; PS00245; PHYTOCHROME_1; 1.
DR PROSITE; PS50046; PHYTOCHROME_2; 1.
PE 3: Inferred from homology;
KW Chromophore; Photoreceptor protein; Receptor; Reference proteome; Repeat;
KW Sensory transduction; Transcription; Transcription regulation.
FT CHAIN 1..1137
FT /note="Phytochrome C"
FT /id="PRO_0000300861"
FT DOMAIN 217..400
FT /note="GAF"
FT DOMAIN 620..690
FT /note="PAS 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00140"
FT DOMAIN 750..824
FT /note="PAS 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00140"
FT DOMAIN 904..1124
FT /note="Histidine kinase"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00107"
FT REGION 1..27
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1..24
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 322
FT /ligand="phytochromobilin"
FT /ligand_id="ChEBI:CHEBI:189064"
FT /note="covalent, via 1 link"
FT /evidence="ECO:0000250"
FT CONFLICT 504
FT /note="Y -> C (in Ref. 1; AAF66603)"
FT /evidence="ECO:0000305"
FT CONFLICT 1025
FT /note="M -> T (in Ref. 1; AAF66603)"
FT /evidence="ECO:0000305"
FT CONFLICT 1109
FT /note="S -> A (in Ref. 1; AAF66603)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1137 AA; 126043 MW; 3E56573767247B36 CRC64;
MSSSRSNNRA TCSRSSSARS KHSARVVAQT PMDAQLHAEF EGSQRHFDYS SSVGAANRSG
ATTSNVSAYL QNMQRGRFVQ PFGCLLAVHP ETFALLAYSE NAAEMLDLTP HAVPTIDQRE
ALAVGTDVRT LFRSHSFVAL QKAATFGDVN LLNPILVHAR TSGKPFYAIM HRIDVGLVID
LEPVNPVDLP VTATGAIKSY KLAARAIARL QSLPSGNLSL LCDVLVREVS ELTGYDRVMA
YKFHEDEHGE VIAECKRSDL EPYLGLHYPA TDIPQASRFL FMKNKVRMIC DCSATPVKII
QDDSLTQPIS ICGSTLRAPH GCHAQYMASM GSVASLVMSV TINEDEDDDG DTGSDQQPKG
RKLWGLMVCH HTSPRFVPFP LRYACEFLLQ VFGIQINKEV ELAAQAKERH ILRTQTLLCD
MLLRDAPVGI FTQSPNVMDL VKCDGAALYY QNQLWVLGST PSEAEIKNIV AWLQEYHDGS
TGLSTDSLVE AGYPGAAALG DVVYGMAAIK ISSKDFIFWF RSHTAKEIKW GGAKHEPIDA
DDNGRKMHPR SSFKAFLEVV KWRSVPWEDV EMDAIHSLQL ILRGSLQDED ANKNNNAKSI
VTAPSDDMKK IQGLLELRTV TNEMVRLIET ATAPILAVDI TGSINGWNNK AAELTGLPVM
EAIGKPLVDL VIDDSVEVVK QILNSALQGI EEQNLQIKLK TFNHQENNGP VILMVNACCS
RDLSEKVVGV CFVAQDMTGQ NIIMDKYTRI QGDYVAIVKN PSELIPPIFM INDLGSCLEW
NEAMQKITGI KREDAVDKLL IGEVFTHHEY GCRVKDHGTL TKLSILMNTV ISGQDPEKLL
FGFFNTDGKY IESLMTATKR TDAEGKITGA LCFLHVASPE LQHALQVQKM SEQAAMNSFK
ELTYIRQELR NPLNGMQFTR NLLEPSDLTE EQRKLLASNV LCQEQLKKIL HDTDLESIEQ
CYTEMSTVDF NLEEALNTVL MQAMPQSKEK QISIDRDWPA EVSCMHLCGD NLRLQQVLAD
FLACMLQFTQ PAEGPIVLQV IPRMENIGSG MQIAHLEFRL VHPAPGVPEA LIQEMFRHSP
GASREGLGLY ISQKLVKTMS GTVQYLRESE SSSFIVLVEF PVAQLSTKRC KASTSKF
