HD1_ORYSJ
ID HD1_ORYSJ Reviewed; 395 AA.
AC Q9FDX8; Q8H2H0;
DT 13-JUL-2010, integrated into UniProtKB/Swiss-Prot.
DT 01-MAR-2001, sequence version 1.
DT 03-AUG-2022, entry version 132.
DE RecName: Full=Zinc finger protein HD1 {ECO:0000303|PubMed:11148291};
DE AltName: Full=Protein CONSTANS-like {ECO:0000305};
DE AltName: Full=Protein HEADING DATE 1 {ECO:0000303|PubMed:11148291};
DE Short=OsHd1 {ECO:0000303|PubMed:11148291};
DE AltName: Full=Protein PHOTOPERIOD SENSITIVITY 1 {ECO:0000303|PubMed:12700762};
GN Name=HD1 {ECO:0000303|PubMed:11148291, ECO:0000303|PubMed:12700762};
GN Synonyms=SE1 {ECO:0000303|PubMed:12700762, ECO:0000303|PubMed:18726584};
GN OrderedLocusNames=Os06g0275000 {ECO:0000305}, LOC_Os06g16370 {ECO:0000305};
GN ORFNames=P0038C05.23 {ECO:0000312|EMBL:BAB19341.1},
GN P0676F10.34 {ECO:0000312|EMBL:BAC20631.1};
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 [GENOMIC DNA / MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=11148291; DOI=10.2307/3871242;
RA Yano M., Katayose Y., Ashikari M., Yamanouchi U., Monna L., Fuse T.,
RA Baba T., Yamamoto K., Umehara Y., Nagamura Y., Sasaki T.;
RT "Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is
RT closely related to the Arabidopsis flowering time gene CONSTANS.";
RL Plant Cell 12:2473-2484(2000).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=cv. Koshihikari;
RX PubMed=18726584; DOI=10.1007/s00122-008-0833-0;
RA Matsubara K., Kono I., Hori K., Nonoue Y., Ono N., Shomura A.,
RA Mizubayashi T., Yamamoto S., Yamanouchi U., Shirasawa K., Nishio T.,
RA Yano M.;
RT "Novel QTLs for photoperiodic flowering revealed by using reciprocal
RT backcross inbred lines from crosses between japonica rice cultivars.";
RL Theor. Appl. Genet. 117:935-945(2008).
RN [3]
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 [4]
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 [5]
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 [6]
RP FUNCTION, AND INDUCTION.
RX PubMed=12700762; DOI=10.1038/nature01549;
RA Hayama R., Yokoi S., Tamaki S., Yano M., Shimamoto K.;
RT "Adaptation of photoperiodic control pathways produces short-day flowering
RT in rice.";
RL Nature 422:719-722(2003).
RN [7]
RP POLYMORPHISM.
RX PubMed=15078816; DOI=10.1101/gad.1189604;
RA Doi K., Izawa T., Fuse T., Yamanouchi U., Kubo T., Shimatani Z., Yano M.,
RA Yoshimura A.;
RT "Ehd1, a B-type response regulator in rice, confers short-day promotion of
RT flowering and controls FT-like gene expression independently of Hd1.";
RL Genes Dev. 18:926-936(2004).
RN [8]
RP INTERACTION WITH HAL3, AND SUBCELLULAR LOCATION.
RX PubMed=26537047; DOI=10.1016/j.molp.2015.10.009;
RA Su L., Shan J.X., Gao J.P., Lin H.X.;
RT "OsHAL3, a blue light-responsive protein, interacts with the floral
RT regulator Hd1 to activate flowering in rice.";
RL Mol. Plant 9:233-244(2016).
RN [9]
RP PHOSPHORYLATION BY OSK4.
RX PubMed=26954091; DOI=10.1371/journal.pgen.1005927;
RA Sun X., Zhang Z., Wu J., Cui X., Feng D., Wang K., Xu M., Zhou L., Han X.,
RA Gu X., Lu T.;
RT "The Oryza sativa regulator HDR1 associates with the kinase OsK4 to control
RT photoperiodic flowering.";
RL PLoS Genet. 12:E1005927-E1005927(2016).
RN [10]
RP X-RAY CRYSTALLOGRAPHY (2.55 ANGSTROMS) OF 311-375.
RX PubMed=32843433; DOI=10.1105/tpc.20.00067;
RA Shen C., Liu H., Guan Z., Yan J., Zheng T., Yan W., Wu C., Zhang Q.,
RA Yin P., Xing Y.;
RT "Structural insight into DNA recognition by CCT/NF-YB/YC complexes in plant
RT photoperiodic flowering.";
RL Plant Cell 32:3469-3484(2020).
CC -!- FUNCTION: Probable transcription factor involved in the regulation of
CC flower development. Required for the promotion of flowering under short
CC day (SD) conditions and the suppression of flowering under long day
CC (LD) conditions. Regulates positively the floral activator HEADING DATE
CC 3a (HD3A) under SD and negatively under LD conditions.
CC {ECO:0000269|PubMed:12700762}.
CC -!- SUBUNIT: Interacts with HAL3 in the dark.
CC {ECO:0000269|PubMed:26537047}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:26537047}.
CC -!- INDUCTION: Expressed with a circadian rhythm showing a peak at night
CC and then decreasing to reach the lowest levels around the middle of the
CC day in LD conditions. The levels of expression in SD conditions are
CC slightly lower. {ECO:0000269|PubMed:12700762}.
CC -!- PTM: Phosphorylated by OSK4 in the presence of HDR1.
CC {ECO:0000269|PubMed:26954091}.
CC -!- POLYMORPHISM: The cultivar Taichung 65 exhibits a long basic vegetative
CC growth and reduced response to photoperiod due to loss-of-function
CC alleles of HD1 and EHD1. This confers almost constant and sufficient
CC vegetative growth periods even in low latitudes where short photoperiod
CC conditions continue almost throughout the year.
CC -!- MISCELLANEOUS: The GIGANTEA-CONSTANS-FLOWER LOCUS T (GI-CO-FT) pathway
CC to control photoperiodic flowering under LD is conserved between
CC Arabidopsis and rice, but the regulation of the downstream gene by the
CC upstream regulatory gene is reversed in the two species. In
CC Arabidopsis, GI acts as an activator of CO, which in turn activates the
CC floral activator FT under LD conditions. In rice, GI activates HD1/CO
CC in a similar manner to that in Arabidopsis. However, under LD
CC conditions, HD1 suppresses HD3A/FT expression, causing the suppression
CC of flowering.
CC -!- SIMILARITY: Belongs to the CONSTANS family. {ECO:0000305}.
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DR EMBL; AB041837; BAB17627.1; -; Genomic_DNA.
DR EMBL; AB041838; BAB17628.1; -; mRNA.
DR EMBL; AB375859; BAF99113.1; -; Genomic_DNA.
DR EMBL; AP003044; BAB19341.1; -; Genomic_DNA.
DR EMBL; AP005813; BAC20631.1; -; Genomic_DNA.
DR EMBL; AP008212; BAF19292.1; -; Genomic_DNA.
DR EMBL; AP014962; BAS97223.1; -; Genomic_DNA.
DR RefSeq; XP_015641799.1; XM_015786313.1.
DR PDB; 7C9O; X-ray; 2.55 A; A=311-375.
DR PDBsum; 7C9O; -.
DR AlphaFoldDB; Q9FDX8; -.
DR SMR; Q9FDX8; -.
DR STRING; 4530.OS06T0275000-01; -.
DR PaxDb; Q9FDX8; -.
DR PRIDE; Q9FDX8; -.
DR EnsemblPlants; Os06t0275000-01; Os06t0275000-01; Os06g0275000.
DR GeneID; 4340746; -.
DR Gramene; Os06t0275000-01; Os06t0275000-01; Os06g0275000.
DR KEGG; osa:4340746; -.
DR eggNOG; KOG1601; Eukaryota.
DR HOGENOM; CLU_028225_3_0_1; -.
DR InParanoid; Q9FDX8; -.
DR OMA; QIEVDQM; -.
DR OrthoDB; 1303650at2759; -.
DR PlantReactome; R-OSA-8934036; Long day regulated expression of florigens.
DR PlantReactome; R-OSA-8934108; Short day regulated expression of florigens.
DR Proteomes; UP000000763; Chromosome 6.
DR Proteomes; UP000059680; Chromosome 6.
DR ExpressionAtlas; Q9FDX8; differential.
DR Genevisible; Q9FDX8; OS.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:Gramene.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
DR GO; GO:0009908; P:flower development; IEA:UniProtKB-KW.
DR GO; GO:0048571; P:long-day photoperiodism; IEP:Gramene.
DR GO; GO:0048579; P:negative regulation of long-day photoperiodism, flowering; IMP:UniProtKB.
DR GO; GO:0045892; P:negative regulation of transcription, DNA-templated; IMP:UniProtKB.
DR GO; GO:0048576; P:positive regulation of short-day photoperiodism, flowering; IMP:UniProtKB.
DR GO; GO:0009909; P:regulation of flower development; IMP:UniProtKB.
DR GO; GO:0048572; P:short-day photoperiodism; IEP:Gramene.
DR InterPro; IPR010402; CCT_domain.
DR InterPro; IPR045281; CONSTANS-like.
DR InterPro; IPR000315; Znf_B-box.
DR PANTHER; PTHR31319; PTHR31319; 1.
DR Pfam; PF06203; CCT; 1.
DR Pfam; PF00643; zf-B_box; 1.
DR SMART; SM00336; BBOX; 2.
DR PROSITE; PS51017; CCT; 1.
DR PROSITE; PS50119; ZF_BBOX; 2.
PE 1: Evidence at protein level;
KW 3D-structure; Developmental protein; Differentiation; DNA-binding;
KW Flowering; Metal-binding; Nucleus; Phosphoprotein; Reference proteome;
KW Repeat; Transcription; Transcription regulation; Zinc; Zinc-finger.
FT CHAIN 1..395
FT /note="Zinc finger protein HD1"
FT /id="PRO_0000395303"
FT DOMAIN 326..368
FT /note="CCT"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00357"
FT ZN_FING 30..72
FT /note="B box-type 1; atypical"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT ZN_FING 73..117
FT /note="B box-type 2; atypical"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT REGION 147..176
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 208..228
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 208..222
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 35
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 38
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 58
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 63
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 78
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 81
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 101
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT BINDING 106
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00024"
FT HELIX 324..338
FT /evidence="ECO:0007829|PDB:7C9O"
FT HELIX 349..356
FT /evidence="ECO:0007829|PDB:7C9O"
SQ SEQUENCE 395 AA; 43075 MW; F0A00E46DFFE1F0D CRC64;
MNYNFGGNVF DQEVGVGGEG GGGGEGSGCP WARPCDGCRA APSVVYCRAD AAYLCASCDA
RVHAANRVAS RHERVRVCEA CERAPAALAC RADAAALCVA CDVQVHSANP LPAITIPATS
VLAEAVVATA TVLGDKDEEV DSWLLLSKDS DNNNNNNNNN DNDNNDNNNS NSSNNGMYFG
EVDEYFDLVG YNSYYDNRIE NNQDRQYGMH EQQEQQQQQQ EMQKEFAEKE GSECVVPSQI
TMLSEQQHSG YGVVGADQAA SMTAGVSAYT DSISNSISFS SMEAGIVPDS TVIDMPNSRI
LTPAGAINLF SGPSLQMSLH FSSMDREARV LRYREKKKAR KFEKTIRYET RKAYAEARPR
IKGRFAKRSD VQIEVDQMFS TAALSDGSYG TVPWF
