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 Phvul.003G213600.1
Common NamePHAVU_003G213600g
Organism
Phaseolus vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus
Family MIKC_MADS
Protein Properties Length: 144aa    MW: 16766.2 Da    PI: 10.2433
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.003G213600.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.71e-30959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++ rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++g+lye+ss
  Phvul.003G213600.1  9 KRIENETSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSTRGRLYEFSS 59
                        79***********************************************96 PP
2K-box47.38.6e-17881441369
               K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskK 69 
                         +++ l+     + k+ie+L ++ R+llG++L+++s+ eL+q+e+qLe+sl+kiR++K
  Phvul.003G213600.1  88 NTQILKDGDMSMTKRIEQLDNSRRKLLGDELDPCSIDELRQVENQLERSLEKIRARK 144
                         4566666667899*******************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.5E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.917161IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-31323IPR002100Transcription factor, MADS-box
CDDcd002653.90E-39372No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.88E-31375IPR002100Transcription factor, MADS-box
PfamPF003199.4E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.28489144IPR002487Transcription factor, K-box
PfamPF014866.2E-1490144IPR002487Transcription 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: 144 aa     Download sequence    Send to blast
MVRGKTQMKR IENETSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFST RGRLYEFSSS  60
TSSINKTVER YQRKIKDVCV NNNGIHENTQ ILKDGDMSMT KRIEQLDNSR RKLLGDELDP  120
CSIDELRQVE NQLERSLEKI RARK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-18160160MEF2C
5f28_B4e-18160160MEF2C
5f28_C4e-18160160MEF2C
5f28_D4e-18160160MEF2C
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
PlantRegMapPhvul.003G213600.1
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
GenBankBT0992181e-136BT099218.1 Soybean clone JCVI-FLGm-13H19 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007155575.11e-101hypothetical protein PHAVU_003G213600g, partial
SwissprotO827433e-62AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLV7CBN11e-99V7CBN1_PHAVU; Uncharacterized protein (Fragment)
STRINGXP_007155575.11e-100(Phaseolus vulgaris)
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
AT4G22950.11e-64AGAMOUS-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]