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 Cagra.2248s0020.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MIKC_MADS
Protein Properties Length: 180aa    MW: 20624.8 Da    PI: 9.215
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.2248s0020.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.71.5e-28959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien + rqvtfskRr+g+lKKA+ELSvLCda+va i+fs++g+ly+++s
  Cagra.2248s0020.1.p  9 KRIENVTSRQVTFSKRRKGLLKKAHELSVLCDAQVAAIVFSQNGRLYDFAS 59
                         79***********************************************86 PP
2K-box48.44.1e-1783145971
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKne 71 
                          ++e+  ++l++e+a + ++i+ Lq   R+++G+dL+s+s++eL++L  q+eksl+ +Rs+K +
  Cagra.2248s0020.1.p  83 QKEQYVQELKREMAIMVNKIDHLQLHCRRVMGQDLDSCSVEELKELTIQIEKSLTIVRSRKPR 145
                          678889******************999**********************************75 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.2E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.581161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-31387IPR002100Transcription factor, MADS-box
CDDcd002654.22E-40370No hitNo description
PRINTSPR004041.3E-29323IPR002100Transcription factor, MADS-box
PfamPF003199.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.1E-1486146IPR002487Transcription factor, K-box
PROSITE profilePS512978.788179IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 180 aa     Download sequence    Send to blast
MVRGKIEIKR IENVTSRQVT FSKRRKGLLK KAHELSVLCD AQVAAIVFSQ NGRLYDFASS  60
DMTKIMERYE IYRRESFAAE RLQKEQYVQE LKREMAIMVN KIDHLQLHCR RVMGQDLDSC  120
SVEELKELTI QIEKSLTIVR SRKPRNVQES DHKSAASCGS GNMDISDVKT DLFIGLPES*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3mu6_A4e-20372271Myocyte-specific enhancer factor 2A
3mu6_B4e-20372271Myocyte-specific enhancer factor 2A
3mu6_C4e-20372271Myocyte-specific enhancer factor 2A
3mu6_D4e-20372271Myocyte-specific enhancer factor 2A
5f28_A7e-20172172MEF2C
5f28_B7e-20172172MEF2C
5f28_C7e-20172172MEF2C
5f28_D7e-20172172MEF2C
6byy_A8e-20172172MEF2 CHIMERA
6byy_B8e-20172172MEF2 CHIMERA
6byy_C8e-20172172MEF2 CHIMERA
6byy_D8e-20172172MEF2 CHIMERA
6bz1_A9e-20172172MEF2 CHIMERA
6bz1_B9e-20172172MEF2 CHIMERA
6bz1_C9e-20172172MEF2 CHIMERA
6bz1_D9e-20172172MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL71 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1. {ECO:0000269|PubMed:21609362}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.2248s0020.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893093e-66AC189309.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB034C07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023633792.11e-121MADS-box protein AGL71
SwissprotQ9FLH52e-66AGL72_ARATH; MADS-box protein AGL72
TrEMBLR0F2Y01e-128R0F2Y0_9BRAS; Uncharacterized protein
STRINGCagra.2248s0020.1.p1e-129(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88051235
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.21e-70MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]