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 Brast03G129400.1.p
Organism
Brachypodium stacei
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: 426aa    MW: 46761.6 Da    PI: 8.8344
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast03G129400.1.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
  Brast03G129400.1.p  92 FVCEICNKGFQRDQNLQLHRRGH 114
                         89*******************88 PP
2zf-C2H213.30.00025179201123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC+ Cgk++  +s+ k H +++
  Brast03G129400.1.p 179 WKCERCGKRYAVHSDWKAHVKNC 201
                         58******************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.97E-891114No hitNo description
Gene3DG3DSA:3.30.160.601.3E-591114IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121716.5E-592114IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.94992114IPR007087Zinc finger, C2H2
SMARTSM003550.01792114IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028094114IPR007087Zinc finger, C2H2
SMARTSM0035596144174IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-4167199IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.97E-8174199No hitNo description
SMARTSM0035593179199IPR015880Zinc 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: 426 aa     Download sequence    Send to blast
MMLSDLSSDQ EATGSNSHGG GGDVVLGNQH VLLSPLFAPP SQALLLRPAP QLEQLQQPMA  60
GGKRKRSQPG NPDPGAEVIA LSPRALVATN RFVCEICNKG FQRDQNLQLH RRGHNLPWKL  120
RQRGSLPAAH NKQGGDGGPR KRVYVCPEPS CVHHDPARAL GDLTGIKKHF SRKHGEKRWK  180
CERCGKRYAV HSDWKAHVKN CGTREYRCDC GILFSRKDSL LTHRAFCDAL AEESARILAA  240
ANNSTNSRNS NIISNSNSGS RSNNNLLSPP PLFPTFSSHA QNPNPLTFLS QEPRYHHHHQ  300
QQEEELLPPF QPLYSYLDHV DLPMSAAITG SVSAFDADRD TLSFGLTPEG SVTMHAGGRR  360
RLTRDFLGAG EVMEDQLQMP LCSANAAAYQ GRHVATAASV CCATDLTRQY LGRLPPVSET  420
WSHNF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-33175244372Zinc finger protein JACKDAW
5b3h_F2e-33175244372Zinc 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
PlantRegMapBrast03G129400.1.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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010234737.10.0protein indeterminate-domain 12 isoform X1
SwissprotB1B5341e-154EHD2_ORYSJ; Protein EARLY HEADING DATE 2
TrEMBLA0A0Q3HTA80.0A0A0Q3HTA8_BRADI; Uncharacterized protein
STRINGTraes_6DS_DE865EA6D.10.0(Triticum aestivum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP130962832
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G55110.18e-99indeterminate(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]