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 KFK28193.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family MIKC_MADS
Protein Properties Length: 196aa    MW: 22172.2 Da    PI: 6.2983
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK28193.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF61.68.7e-20956148
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                krie ks rqv fskRrng++ KA  +S+LCd  vav+++s +gkly 
  KFK28193.1  9 KRIEKKSTRQVAFSKRRNGLIEKARQISILCDSSVAVLVVSASGKLYN 56
                79********************************************97 PP
2K-box387.1e-141091644398
       K-box  43 LesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                 +++ s+  L ++e+qLe++l+  R++K+el++e +++ q+kek l een+ L +++
  KFK28193.1 109 VDNVSVDSLTSVEEQLETALSATRARKTELMMELLKTHQEKEKLLIEENRVLASQM 164
                 57789999******************************************999875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004326.0E-29160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-23172IPR002100Transcription factor, MADS-box
PROSITE profilePS5006626.829161IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-21323IPR002100Transcription factor, MADS-box
PfamPF003195.2E-191055IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-212338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-213859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.45370170IPR002487Transcription factor, K-box
PfamPF014863.1E-10108164IPR002487Transcription 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: 196 aa     Download sequence    Send to blast
MGRRKIEIKR IEKKSTRQVA FSKRRNGLIE KARQISILCD SSVAVLVVSA SGKLYNSSSG  60
DNMTKIINSY EIQHADDLQA LDLAERIRNY LPHKELLEFV QSSLAEPNVD NVSVDSLTSV  120
EEQLETALSA TRARKTELMM ELLKTHQEKE KLLIEENRVL ASQMGRNTFL VTEEDRAMSP  180
ENNSDNNPPE TLSLLK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-14170169MEF2 CHIMERA
6byy_B1e-14170169MEF2 CHIMERA
6byy_C1e-14170169MEF2 CHIMERA
6byy_D1e-14170169MEF2 CHIMERA
6bz1_A1e-14170169MEF2 CHIMERA
6bz1_B1e-14170169MEF2 CHIMERA
6bz1_C1e-14170169MEF2 CHIMERA
6bz1_D1e-14170169MEF2 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
PlantRegMapKFK28193.1
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024007051.11e-112LOW QUALITY PROTEIN: agamous-like MADS-box protein AGL27
SwissprotQ9LSR71e-106AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLA0A087GE911e-139A0A087GE91_ARAAL; Uncharacterized protein
STRINGA0A087GE911e-140(Arabis alpina)
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
AT5G65060.12e-84MIKC_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]