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.004G123500.1
Common NamePHAVU_004G123500g
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: 209aa    MW: 24292.6 Da    PI: 9.0994
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.004G123500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.81.6e-29959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        +rienk+nrqvtfskRr g+lKKA+ELSvLCdaeva+iifss gkl+ yss
  Phvul.004G123500.1  9 ERIENKINRQVTFSKRRSGLLKKAFELSVLCDAEVALIIFSSPGKLFQYSS 59
                        69***********************************************96 PP
2K-box72.51.2e-2474172199
               K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeen 91 
                         y k ++ + +e +++s+++e+ kL++++e+L+r+qRh++Ge+Le+Ls+keLq+Le+qL+  l   R+++++ l++  +el++k ++l++ n
  Phvul.004G123500.1  74 YSKLQTGDSSELESQSSYHEFLKLRAKYESLERTQRHFQGEELEPLSFKELQSLEKQLDITLALTRQQQTKKLMARADELREKVRKLEDLN 164
                         567788889999******************************************************************************* PP

               K-box  92 kaLrkkle 99 
                         k+L++k +
  Phvul.004G123500.1 165 KQLESKEK 172
                         ***99975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.216161IPR002100Transcription factor, MADS-box
SMARTSM004321.2E-37160IPR002100Transcription factor, MADS-box
CDDcd002652.17E-39278No hitNo description
SuperFamilySSF554555.36E-32279IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004049.9E-30323IPR002100Transcription factor, MADS-box
PfamPF003192.7E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004049.9E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004049.9E-303859IPR002100Transcription factor, MADS-box
PfamPF014861.5E-1984170IPR002487Transcription factor, K-box
PROSITE profilePS5129713.56787178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 209 aa     Download sequence    Send to blast
MGRGRVVLER IENKINRQVT FSKRRSGLLK KAFELSVLCD AEVALIIFSS PGKLFQYSST  60
DINKIVERYR QCRYSKLQTG DSSELESQSS YHEFLKLRAK YESLERTQRH FQGEELEPLS  120
FKELQSLEKQ LDITLALTRQ QQTKKLMARA DELREKVRKL EDLNKQLESK EKDEFSSLIL  180
DNNNFFQLHA TKADQFESGT TLDTCKNI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-24169169MEF2C
5f28_B1e-24169169MEF2C
5f28_C1e-24169169MEF2C
5f28_D1e-24169169MEF2C
6byy_A2e-24169169MEF2 CHIMERA
6byy_B2e-24169169MEF2 CHIMERA
6byy_C2e-24169169MEF2 CHIMERA
6byy_D2e-24169169MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Regulates floral organ identity and floral meristem determinacy. May be involved in the control of flowering time. {ECO:0000269|PubMed:19820190, ECO:0000269|Ref.8}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPhvul.004G123500.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0936810.0BT093681.1 Soybean clone JCVI-FLGm-14A18 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007152361.11e-149hypothetical protein PHAVU_004G123500g
SwissprotQ6EU398e-67MADS6_ORYSJ; MADS-box transcription factor 6
TrEMBLV7C4Z61e-148V7C4Z6_PHAVU; Uncharacterized protein
STRINGXP_007152361.11e-149(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF132231730
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45650.11e-60AGAMOUS-like 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Li H, et al.
    The AGL6-like gene OsMADS6 regulates floral organ and meristem identities in rice.
    Cell Res., 2010. 20(3): p. 299-313
    [PMID:20038961]
  3. Zhang J,Nallamilli BR,Mujahid H,Peng Z
    OsMADS6 plays an essential role in endosperm nutrient accumulation and is subject to epigenetic regulation in rice (Oryza sativa).
    Plant J., 2010. 64(4): p. 604-17
    [PMID:20822505]
  4. Seok HY, et al.
    Rice ternary MADS protein complexes containing class B MADS heterodimer.
    Biochem. Biophys. Res. Commun., 2010. 401(4): p. 598-604
    [PMID:20888318]
  5. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]
  6. Yadav SR,Khanday I,Majhi BB,Veluthambi K,Vijayraghavan U
    Auxin-responsive OsMGH3, a common downstream target of OsMADS1 and OsMADS6, controls rice floret fertility.
    Plant Cell Physiol., 2011. 52(12): p. 2123-35
    [PMID:22016342]
  7. Duan Y, et al.
    Characterization of Osmads6-5, a null allele, reveals that OsMADS6 is a critical regulator for early flower development in rice (Oryza sativa L.).
    Plant Mol. Biol., 2012. 80(4-5): p. 429-42
    [PMID:22933119]
  8. Conrad LJ, et al.
    The polycomb group gene EMF2B is essential for maintenance of floral meristem determinacy in rice.
    Plant J., 2014. 80(5): p. 883-94
    [PMID:25279942]
  9. Zhang J, et al.
    Down-regulation of a LBD-like gene, OsIG1, leads to occurrence of unusual double ovules and developmental abnormalities of various floral organs and megagametophyte in rice.
    J. Exp. Bot., 2015. 66(1): p. 99-112
    [PMID:25324400]
  10. Bai X, et al.
    Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice.
    Sci Rep, 2016. 6: p. 19022
    [PMID:26744119]
  11. Zhang B, et al.
    A High Temperature-Dependent Mitochondrial Lipase EXTRA GLUME1 Promotes Floral Phenotypic Robustness against Temperature Fluctuation in Rice (Oryza sativa L.).
    PLoS Genet., 2016. 12(7): p. e1006152
    [PMID:27367609]