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 Bradi3g05260.1.p
Common NameBRADI_3g05260, LOC100822441
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family MIKC_MADS
Protein Properties Length: 265aa    MW: 28824.5 Da    PI: 7.1294
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g05260.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF85.92.4e-27959151
                      S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
            SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                      krien +nrqvtfskRr g+lKKA+EL vLCda+v v+ifsstg+++eyss
  Bradi3g05260.1.p  9 KRIENATNRQVTFSKRRGGLLKKANELAVLCDARVGVVIFSSTGRMFEYSS 59
                      79***********************************************96 PP
2K-box62.51.6e-2171170199
             K-box   1 yqkssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenk 92 
                       yq++++++  e ++ ++   e++++++e+e+L++ +R++ G+dL+sLsl +   +eqqLe s +k+R++K +l+ +q ++l++k + l+++n+
  Bradi3g05260.1.p  71 YQNTTNSQfEEINHDQQIFVEMTRMRNELEKLESGIRQYTGDDLSSLSLADVGDIEQQLELSASKVRARKIQLINQQADNLRRKGHILEDQNT 163
                       6767777777778889999************************************************************************** PP

             K-box  93 aLrkkle 99 
                        L ++++
  Bradi3g05260.1.p 164 LLCRMYN 170
                       9988765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.394161IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.35E-31288IPR002100Transcription factor, MADS-box
CDDcd002655.85E-41278No hitNo description
PRINTSPR004047.2E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.2E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-293859IPR002100Transcription factor, MADS-box
PfamPF014864.3E-2180168IPR002487Transcription factor, K-box
PROSITE profilePS5129713.74985175IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008360Biological Processregulation of cell shape
GO:0019252Biological Processstarch biosynthetic process
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:2000029Biological Processregulation of proanthocyanidin biosynthetic process
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: 265 aa     Download sequence    Send to blast
MGRGKIEIKR IENATNRQVT FSKRRGGLLK KANELAVLCD ARVGVVIFSS TGRMFEYSSP  60
TSSLRELIQQ YQNTTNSQFE EINHDQQIFV EMTRMRNELE KLESGIRQYT GDDLSSLSLA  120
DVGDIEQQLE LSASKVRARK IQLINQQADN LRRKGHILED QNTLLCRMYN ESQQHGVGGS  180
GGGEVKMMGM SPVLSMLPPS AFPATPYYGG GGGEESSSTA LQLTSPLQAA EAAAAAAGFR  240
LQPTQPNLQD PACSSLHAGH GLHL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-18159159MEF2C
5f28_B1e-18159159MEF2C
5f28_C1e-18159159MEF2C
5f28_D1e-18159159MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi3g05260.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF4693180.0KF469318.1 Brachypodium distachyon MADS-box transcription factor 23 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010233633.10.0MADS-box transcription factor 29-like isoform X2
SwissprotQ6H7111e-133MAD29_ORYSJ; MADS-box transcription factor 29
TrEMBLA0A0Q3F2400.0A0A0Q3F240_BRADI; Uncharacterized protein
STRINGBRADI3G05260.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP185037100
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G26310.14e-45MIKC_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. Li M,Sun P,Zhou H,Chen S,Yu S
    Identification of quantitative trait loci associated with germination using chromosome segment substitution lines of rice (Oryza sativa L.).
    Theor. Appl. Genet., 2011. 123(3): p. 411-20
    [PMID:21512773]
  3. Yin LL,Xue HW
    The MADS29 transcription factor regulates the degradation of the nucellus and the nucellar projection during rice seed development.
    Plant Cell, 2012. 24(3): p. 1049-65
    [PMID:22408076]
  4. Yang X, et al.
    Live and let die - the B(sister) MADS-box gene OsMADS29 controls the degeneration of cells in maternal tissues during seed development of rice (Oryza sativa).
    PLoS ONE, 2012. 7(12): p. e51435
    [PMID:23251532]
  5. Nayar S,Sharma R,Tyagi AK,Kapoor S
    Functional delineation of rice MADS29 reveals its role in embryo and endosperm development by affecting hormone homeostasis.
    J. Exp. Bot., 2013. 64(14): p. 4239-53
    [PMID:23929654]
  6. Wei B, et al.
    Genome-wide analysis of the MADS-box gene family in Brachypodium distachyon.
    PLoS ONE, 2014. 9(1): p. e84781
    [PMID:24454749]
  7. Nayar S,Kapoor M,Kapoor S
    Post-translational regulation of rice MADS29 function: homodimerization or binary interactions with other seed-expressed MADS proteins modulate its translocation into the nucleus.
    J. Exp. Bot., 2014. 65(18): p. 5339-50
    [PMID:25096923]
  8. Schilling S, et al.
    Non-canonical structure, function and phylogeny of the Bsister MADS-box gene OsMADS30 of rice (Oryza sativa).
    Plant J., 2015. 84(6): p. 1059-72
    [PMID:26473514]