PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bradi3g26910.2.p
Common NameBRADI_3g26910, LOC100828004
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family C2H2
Protein Properties Length: 430aa    MW: 46983.8 Da    PI: 8.6102
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g26910.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.51.2e-0592114123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C++C+k F r  nL+ H r H
  Bradi3g26910.2.p  92 FVCEICNKGFQRDQNLQLHRRGH 114
                       89*******************88 PP
2zf-C2H213.30.00025186208123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       +kC+ Cgk++  +s+ k H +++
  Bradi3g26910.2.p 186 WKCERCGKRYAVHSDWKAHVKNC 208
                       58******************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.1E-891114No hitNo description
Gene3DG3DSA:3.30.160.601.4E-591114IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.94992114IPR007087Zinc finger, C2H2
SMARTSM003550.01792114IPR015880Zinc finger, C2H2-like
PfamPF121716.6E-592114IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS00028094114IPR007087Zinc finger, C2H2
SMARTSM0035596151181IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-4174206IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.1E-8181206No hitNo description
SMARTSM0035593186206IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 430 aa     Download sequence    Send to blast
MMLSDLSSDQ EATGSNSHGG GGDVVLSNQH VLLNPLFAPA QHQQALLLRP APQLEQQPMA  60
GGKRKRSQPG NPDPGAEVIA LSPRALVATN RFVCEICNKG FQRDQNLQLH RRGHNLPWKL  120
RQRSSSLQAP HSKQLGLGLG GGGDGPRKRV YVCPEPSCVH HDPARALGDL TGIKKHFSRK  180
HGEKRWKCER CGKRYAVHSD WKAHVKNCGT REYRCDCGIL FSRKDSLLTH RAFCDALAEE  240
SARILAAANN SSTSNNSNII NNNNNSVGSS SNNLLSPPPA LFPTFSSHAQ NPNPLMFLSE  300
ETHYHHHHQQ EQLLPPFQPQ YSYLSHVDLP ISSAITSGVS AFDTDRDTLS FGLTPEGSVT  360
MHAGGRRGLT RDFLGAGEVV EDQLQMPLCS AAAYQGRPVA TAVCCATTDL TRQYLGRLPP  420
VSETWSHHF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-33182251372Zinc finger protein JACKDAW
5b3h_F1e-33182251372Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that acts as a flowering master switch in both long and short days, independently of the circadian clock (PubMed:18790997, PubMed:18725639, PubMed:18774969, PubMed:19304997, PubMed:24280027). Promotes flowering upstream of HD1 by up-regulating FTL1, FTL4, FTL5, FTL6, EHD1, HD3A and RFT1 (PubMed:18790997, PubMed:18725639, PubMed:18774969). Seems to repress FTL11 expression (PubMed:18725639). May recognize the consensus motif 5'-TTTGTCGTAAT-3' in target gene promoters (PubMed:18725639). {ECO:0000269|PubMed:18725639, ECO:0000269|PubMed:18774969, ECO:0000269|PubMed:18790997, ECO:0000269|PubMed:24280027, ECO:0000303|PubMed:19304997}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00673SELEXTransfer from GRMZM2G011357Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi3g26910.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by FKF1 (PubMed:25850808). Down-regulated by DLF1 (PubMed:25036785). During the basic vegetative growth phase (BVP, photoperiod-insensitive phase), suppressed via phytochrome-mediated light signals involving the phytochromobilin synthase HY2 (PubMed:25573482). {ECO:0000269|PubMed:25036785, ECO:0000269|PubMed:25573482, ECO:0000269|PubMed:25850808}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3286011e-106DQ328601.1 Lolium multiflorum putative zinc finger protein ID1 (ID1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010234737.10.0protein indeterminate-domain 12 isoform X1
SwissprotB1B5341e-151EHD2_ORYSJ; Protein EARLY HEADING DATE 2
TrEMBLA0A0Q3HTA80.0A0A0Q3HTA8_BRADI; Uncharacterized protein
STRINGBRADI3G26910.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP130962832
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G55110.12e-96indeterminate(ID)-domain 7
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  2. Park SJ, et al.
    Rice Indeterminate 1 (OsId1) is necessary for the expression of Ehd1 (Early heading date 1) regardless of photoperiod.
    Plant J., 2008. 56(6): p. 1018-29
    [PMID:18774969]
  3. Song Y,Gao Z,Luan W
    Interaction between temperature and photoperiod in regulation of flowering time in rice.
    Sci China Life Sci, 2012. 55(3): p. 241-9
    [PMID:22527521]
  4. Hu S, et al.
    A point mutation in the zinc finger motif of RID1/EHD2/OsID1 protein leads to outstanding yield-related traits in japonica rice variety Wuyunjing 7.
    Rice (N Y), 2013. 6(1): p. 24
    [PMID:24280027]
  5. Cai Y, et al.
    Dlf1, a WRKY transcription factor, is involved in the control of flowering time and plant height in rice.
    PLoS ONE, 2014. 9(7): p. e102529
    [PMID:25036785]
  6. Yoshitake Y, et al.
    The effects of phytochrome-mediated light signals on the developmental acquisition of photoperiod sensitivity in rice.
    Sci Rep, 2015. 5: p. 7709
    [PMID:25573482]
  7. Han SH,Yoo SC,Lee BD,An G,Paek NC
    Rice FLAVIN-BINDING, KELCH REPEAT, F-BOX 1 (OsFKF1) promotes flowering independent of photoperiod.
    Plant Cell Environ., 2015. 38(12): p. 2527-40
    [PMID:25850808]
  8. Jin J, et al.
    MORF-RELATED GENE702, a Reader Protein of Trimethylated Histone H3 Lysine 4 and Histone H3 Lysine 36, Is Involved in Brassinosteroid-Regulated Growth and Flowering Time Control in Rice.
    Plant Physiol., 2015. 168(4): p. 1275-85
    [PMID:25855537]
  9. Brambilla V,Gomez-Ariza J,Cerise M,Fornara F
    The Importance of Being on Time: Regulatory Networks Controlling Photoperiodic Flowering in Cereals.
    Front Plant Sci, 2017. 8: p. 665
    [PMID:28491078]