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 NP_001306731.1
Organism
Prunus mume
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus
Family MIKC_MADS
Protein Properties Length: 219aa    MW: 24946.4 Da    PI: 9.2789
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NP_001306731.1genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.45.1e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien   rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++gklye+ss
  NP_001306731.1  9 KRIENAASRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSTRGKLYEFSS 59
                    79***********************************************96 PP
2K-box74.23.7e-25841711198
           K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     + ++e+ + + + + k+i+ ++ ++ +llG++Les+s++eLqq e+qLe+sl+kiR++K++ll+eqie+l++ ek+l e+n +Lr+k 
  NP_001306731.1  84 QVDMEHGKDDTSSMAKKIDFIEASKQKLLGNCLESCSIEELQQTENQLERSLSKIRARKTQLLREQIENLKEEEKNLFEQNAKLREKC 171
                     556788899999*************************************************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.2E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.651161IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002651.01E-40371No hitNo description
PRINTSPR004048.3E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.89E-32373IPR002100Transcription factor, MADS-box
PfamPF003197.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004048.3E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004048.3E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.54487177IPR002487Transcription factor, K-box
PfamPF014861.3E-2388171IPR002487Transcription 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: 219 aa     Download sequence    Send to blast
MVRGKTQMKR IENAASRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFST RGKLYEFSSS  60
SIGNTLDRYQ KRVKDQGLGS KAVQVDMEHG KDDTSSMAKK IDFIEASKQK LLGNCLESCS  120
IEELQQTENQ LERSLSKIRA RKTQLLREQI ENLKEEEKNL FEQNAKLREK CGMQPLGPPS  180
ARKDEENCAV RQPRTPDMED VETDLVIGPP ERRRSSQNP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-18169169MEF2C
5f28_B2e-18169169MEF2C
5f28_C2e-18169169MEF2C
5f28_D2e-18169169MEF2C
6byy_A2e-18169169MEF2 CHIMERA
6byy_B2e-18169169MEF2 CHIMERA
6byy_C2e-18169169MEF2 CHIMERA
6byy_D2e-18169169MEF2 CHIMERA
6bz1_A3e-18169169MEF2 CHIMERA
6bz1_B3e-18169169MEF2 CHIMERA
6bz1_C3e-18169169MEF2 CHIMERA
6bz1_D3e-18169169MEF2 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapNP_001306731.1
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
GenBankKP9389650.0KP938965.1 Prunus mume SOC1-like protein 3 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001306731.11e-160agamous-like MADS-box protein AGL19
SwissprotO827439e-80AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A0K1Z6361e-158A0A0K1Z636_PRUMU; SOC1-like protein 3
STRINGXP_008238753.11e-159(Prunus mume)
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
AT4G22950.12e-73AGAMOUS-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]