PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cucsa.302640.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family MIKC_MADS
Protein Properties Length: 223aa    MW: 25852.4 Da    PI: 8.3062
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.302640.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.51.2e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien + rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++gklye+s+
  Cucsa.302640.1  9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSN 59
                    79***********************************************95 PP

2K-box68.91.6e-23891721798
           K-box  17 lqqela..kLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     l++e++   + k++e L+  +R+llG++L+ +s+ eLqqLe+qLe+sl+kiRs+K+++l+++i +l++ ek+l een aL+ k+
  Cucsa.302640.1  89 LEKEYDsfSMTKKLEHLEVCKRKLLGDGLDLCSIDELQQLERQLERSLSKIRSRKYQMLKDEIMKLKEEEKMLLEENAALQIKV 172
                     44444422689*********************************************************************9886 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.286161IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-31323IPR002100Transcription factor, MADS-box
CDDcd002651.69E-41378No hitNo description
SuperFamilySSF554554.32E-33381IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.3E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.04888182IPR002487Transcription factor, K-box
PfamPF014863.7E-2289172IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010048Biological Processvernalization response
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
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: 223 aa     Download sequence    Send to blast
MVRGKTQMKR IENATSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFSP RGKLYEFSNC  60
SMNKTIDRYQ NRTKDLMSSN STAIEDVQLE KEYDSFSMTK KLEHLEVCKR KLLGDGLDLC  120
SIDELQQLER QLERSLSKIR SRKYQMLKDE IMKLKEEEKM LLEENAALQI KVISESSKKQ  180
ESNQRSESSN HEEIMDVETE LFIGPPERRS NNNNNNNNNA FL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A1e-18184184MEF2 CHIMERA
6bz1_B1e-18184184MEF2 CHIMERA
6bz1_C1e-18184184MEF2 CHIMERA
6bz1_D1e-18184184MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269|PubMed:16778081}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269|PubMed:16778081}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6818954e-94LN681895.1 Cucumis melo genomic scaffold, anchoredscaffold00005.
GenBankLN7132634e-94LN713263.1 Cucumis melo genomic chromosome, chr_9.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011654776.11e-160PREDICTED: agamous-like MADS-box protein AGL19
SwissprotO827436e-78AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A1S3AT261e-135A0A1S3AT26_CUCME; agamous-like MADS-box protein AGL19
STRINGXP_004143998.11e-160(Cucumis sativus)
STRINGXP_004166995.11e-160(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF66630102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.17e-60AGAMOUS-like 19
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]
  2. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]