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 Csa02g073660.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family MIKC_MADS
Protein Properties Length: 223aa    MW: 25286.2 Da    PI: 9.0576
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa02g073660.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF61.31.1e-19956148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    krie ks rqvtfskRrng++ KA  LS+LC+  +av+++s +gkly 
  Csa02g073660.1  9 KRIEKKSSRQVTFSKRRNGLIEKARQLSILCESSIAVLVVSGSGKLYN 56
                    79********************************************96 PP
2K-box393.4e-141061634198
           K-box  41 edLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     e +++ s+  L+++e+qLe++l+  R+kK+el++e ++ lq+kek l+een+ L +++
  Csa02g073660.1 106 EPVDNVSVDSLMSMEEQLETALSVTRAKKTELMMEDLKSLQEKEKLLREENQFLASQV 163
                     778899************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.109161IPR002100Transcription factor, MADS-box
SMARTSM004324.1E-29160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.14E-24172IPR002100Transcription factor, MADS-box
CDDcd002652.60E-30271No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-22323IPR002100Transcription factor, MADS-box
PfamPF003194.5E-201055IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-222338IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-223859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.00670169IPR002487Transcription factor, K-box
PfamPF014867.8E-11106163IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009910Biological Processnegative regulation of flower development
GO:0010048Biological Processvernalization response
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
MGRRKVEIKR IEKKSSRQVT FSKRRNGLIE KARQLSILCE SSIAVLVVSG SGKLYNSSSG  60
DNMSKIIDRY EIQHADEQKV LDLEEKARNY LPHEKLLEIV QSKLEEPVDN VSVDSLMSME  120
EQLETALSVT RAKKTELMME DLKSLQEKEK LLREENQFLA SQVTKTQTLI CFMKLTVEKL  180
KETKGSFLQM GQKTFLVTEG ERGMSSENSS GNKIPETLPL LK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A6e-15170169MEF2 CHIMERA
6byy_B6e-15170169MEF2 CHIMERA
6byy_C6e-15170169MEF2 CHIMERA
6byy_D6e-15170169MEF2 CHIMERA
6bz1_A6e-15170169MEF2 CHIMERA
6bz1_B6e-15170169MEF2 CHIMERA
6bz1_C6e-15170169MEF2 CHIMERA
6bz1_D6e-15170169MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv. Landsberg erecta than in cv. Columbia background. Prevents premature flowering (PubMed:12724541, PubMed:25339407). Involved in the modulation of vernalization impact on flowering according to genotype acclimation to altitude (PubMed:25339407). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:25339407}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa02g073660.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed during vernalization (PubMed:12724541). Regulated by HAM1 and HAM2 via epigenetic modification of chromatins at H4K5 acetylation during flowering (PubMed:23273925). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:23273925}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY2314451e-175AY231445.1 Arabidopsis thaliana MADS affecting flowering 3 variant I (MAF3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010462368.11e-132PREDICTED: agamous-like MADS-box protein AGL31 isoform X2
SwissprotQ9LSR71e-110AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLC0J8N91e-108C0J8N9_ARATH; MAF3
STRINGXP_010462368.11e-131(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM9861987
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65060.11e-102MIKC_MADS family protein
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  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]
  3. Nasim Z,Fahim M,Ahn JH
    Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay.
    Front Plant Sci, 2017. 8: p. 191
    [PMID:28261246]