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 cra_locus_12894_iso_2
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family MIKC_MADS
Protein Properties Length: 207aa    MW: 23839.5 Da    PI: 10.1644
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_12894_iso_2genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.13.1e-30959151
                                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                                          krien + rqvtfskRr g+lKKA+ELSvLCdaeva+iifs++gklye+ss
  cra_locus_12894_iso_2_len_1204_ver_3  9 KRIENATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIIFSPKGKLYEFSS 59
                                          79***********************************************96 PP
2K-box77.14.6e-26881741399
                                 K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkek 85 
                                             ++ ++++++L+k+i+ L+ ++R++ Ge+L+s+s+ eLqqLe+qLe+s+++iR++Kn ll+eq+++l++ ek
  cra_locus_12894_iso_2_len_1204_ver_3  88 SPQHFEEQVSNLRKRINLLEDSKRKMFGEGLDSCSIDELQQLETQLEQSVTNIRARKNLLLKEQVDRLREEEK 160
                                           568999******************************************************************* PP

                                 K-box  86 elqeenkaLrkkle 99 
                                            l +en +L+kk e
  cra_locus_12894_iso_2_len_1204_ver_3 161 ILARENSELKKKCE 174
                                           ***********975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.623161IPR002100Transcription factor, MADS-box
SMARTSM004326.6E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.06E-32379IPR002100Transcription factor, MADS-box
CDDcd002651.46E-41373No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-30323IPR002100Transcription factor, MADS-box
PfamPF003198.8E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-303859IPR002100Transcription factor, MADS-box
PfamPF014861.2E-2588174IPR002487Transcription factor, K-box
PROSITE profilePS5129714.21489179IPR002487Transcription 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: 207 aa     Download sequence    Send to blast
MVRGKTQMKR IENATSRQVT FSKRRSGLLK KAFELSVLCD AEVALIIFSP KGKLYEFSSS  60
SAAKTIERYQ KNTTKNSNMI NKTPIQPSPQ HFEEQVSNLR KRINLLEDSK RKMFGEGLDS  120
CSIDELQQLE TQLEQSVTNI RARKNLLLKE QVDRLREEEK ILARENSELK KKCEVQSMEL  180
SMSTPQITKG PLRQFMEVET QLFIGPP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-18169169MEF2C
5f28_B1e-18169169MEF2C
5f28_C1e-18169169MEF2C
5f28_D1e-18169169MEF2C
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019172635.11e-91PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
SwissprotO827436e-73AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLM1C2V71e-87M1C2V7_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000585602e-88(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4024625
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]