PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_010906391.1
Common NameDEF1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Arecoideae; Cocoseae; Elaeidinae; Elaeis
Family MIKC_MADS
Protein Properties Length: 197aa    MW: 22721.7 Da    PI: 7.7799
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010906391.1genomeOGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF47.13e-151312151
                    HHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF 21 lKKAeELSvLCdaevaviifsstgklyeyss 51
                    +KKA+EL vLCdaev++i+fsstgk+ ey+s
  XP_010906391.1  1 MKKAKELTVLCDAEVSLIMFSSTGKFSEYCS 31
                    8****************************96 PP

2K-box90.92.3e-3043141199
           K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                     yq+ sg +l++a++e++q+ l+ L++ ++nL+re+R+++GedL+sL + eL+ Leq+L+++lk +R +K++++++q+++ +kk k+ +e++k+L 
  XP_010906391.1  43 YQQVSGINLWSAQYEKMQNTLNHLREINQNLRREIRQRMGEDLDSLGIHELRGLEQNLDEALKVVRHRKYHVITTQTDTYKKKLKNSNEAHKNLL 137
                     7899999***************************************************************************************9 PP

           K-box  96 kkle 99 
                     ++le
  XP_010906391.1 138 HELE 141
                     9986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.2E-4132IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.88E-20166IPR002100Transcription factor, MADS-box
PfamPF003196.1E-10129IPR002100Transcription factor, MADS-box
PROSITE profilePS5006614.998133IPR002100Transcription factor, MADS-box
PfamPF014862.0E-2154140IPR002487Transcription factor, K-box
PROSITE profilePS5129716.05556146IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010093Biological Processspecification of floral organ identity
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: 197 aa     Download sequence    Send to blast
MKKAKELTVL CDAEVSLIMF SSTGKFSEYC SPLSDTKTIF DRYQQVSGIN LWSAQYEKMQ  60
NTLNHLREIN QNLRREIRQR MGEDLDSLGI HELRGLEQNL DEALKVVRHR KYHVITTQTD  120
TYKKKLKNSN EAHKNLLHEL EMKDEHPVYG FVDDDPSNYA GALALANGAS HMYAFRVQPS  180
QPNLHRMGFG SHDLRLA
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. Required for normal development of lodicules and stamens (whorls 2 and 3). May function as a heterodimer with MADS4. {ECO:0000269|PubMed:12506001, ECO:0000269|PubMed:12905025, ECO:0000269|PubMed:14558657}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00077ChIP-seqTransfer from AT3G54340Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001290512.11e-148MADS-box transcription factor 16
SwissprotQ944S91e-84MAD16_ORYSJ; MADS-box transcription factor 16
TrEMBLQ2NNC11e-146Q2NNC1_ELAGV; CDEF1
STRINGGSMUA_Achr9P20950_0011e-123(Musa acuminata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP57283552
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54340.19e-52MIKC_MADS family protein
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. Chen ZX, et al.
    Morphogenesis and molecular basis on naked seed rice, a novel homeotic mutation of OsMADS1 regulating transcript level of AP3 homologue in rice.
    Planta, 2006. 223(5): p. 882-90
    [PMID:16254725]
  3. Adam H, et al.
    MADS box genes in oil palm (Elaeis guineensis): patterns in the evolution of the SQUAMOSA, DEFICIENS, GLOBOSA, AGAMOUS, and SEPALLATA subfamilies.
    J. Mol. Evol., 2006. 62(1): p. 15-31
    [PMID:16320117]
  4. Zhang Q, et al.
    Morphological, anatomical and genetic analysis for a rice mutant with abnormal hull.
    J Genet Genomics, 2007. 34(6): p. 519-26
    [PMID:17601611]
  5. Yoshida H, et al.
    superwoman1-cleistogamy, a hopeful allele for gene containment in GM rice.
    Plant Biotechnol. J., 2007. 5(6): p. 835-46
    [PMID:17764519]
  6. Yao SG,Ohmori S,Kimizu M,Yoshida H
    Unequal genetic redundancy of rice PISTILLATA orthologs, OsMADS2 and OsMADS4, in lodicule and stamen development.
    Plant Cell Physiol., 2008. 49(5): p. 853-7
    [PMID:18378529]
  7. Xiao H, et al.
    STAMENLESS 1, encoding a single C2H2 zinc finger protein, regulates floral organ identity in rice.
    Plant J., 2009. 59(5): p. 789-801
    [PMID:19453444]
  8. 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]
  9. 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]
  10. Sato H,Yoshida K,Mitsuda N,Ohme-Takagi M,Takamizo T
    Male-sterile and cleistogamous phenotypes in tall fescue induced by chimeric repressors of SUPERWOMAN1 and OsMADS58.
    Plant Sci., 2012. 183: p. 183-9
    [PMID:22195592]
  11. Ohmori S,Tabuchi H,Yatou O,Yoshida H
    Agronomic traits and gene containment capability of cleistogamous rice lines with the superwoman1-cleistogamy mutation.
    Breed. Sci., 2012. 62(2): p. 124-32
    [PMID:23136523]
  12. Yun D, et al.
    OsMADS16 genetically interacts with OsMADS3 and OsMADS58 in specifying floral patterning in rice.
    Mol Plant, 2013. 6(3): p. 743-56
    [PMID:23300256]
  13. Jaligot E, et al.
    DNA methylation and expression of the EgDEF1 gene and neighboring retrotransposons in mantled somaclonal variants of oil palm.
    PLoS ONE, 2014. 9(3): p. e91896
    [PMID:24638102]
  14. Lombardo F, et al.
    The superwoman1-cleistogamy2 mutant is a novel resource for gene containment in rice.
    Plant Biotechnol. J., 2017. 15(1): p. 97-106
    [PMID:27336225]