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 Brast08G114200.1.p
Organism
Brachypodium stacei
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: 264aa    MW: 30188.4 Da    PI: 8.8546
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast08G114200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF85.14.1e-2763113151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                         krien+snr+vtf+kRr+g+ KKA E+SvLCdaev v+ifss gkl++++s
  Brast08G114200.1.p  63 KRIENTSNRHVTFAKRRAGLVKKAREISVLCDAEVGVVIFSSAGKLHDFCS 113
                         79***********************************************96 PP
2K-box713.5e-24125222198
               K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeen 91 
                         yq++sgk l+++k++s + e++++kke++n+q e+Rh++GedL+sL+ keL  +e++L+++ ++ R+k++e+++++ ++ ++ e+e++   
  Brast08G114200.1.p 125 YQTNSGKILWDEKHKSISAEIDRVKKENDNMQIELRHMKGEDLNSLQPKELIAIEEALQNGQTNLRDKQMEHWKMHRRNEKMLEDEHKLLA 215
                         79999999******************************************************************************99999 PP

               K-box  92 kaLrkkl 98 
                          +++++ 
  Brast08G114200.1.p 216 FRMHQQD 222
                         8888876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.5E-3955114IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.72155115IPR002100Transcription factor, MADS-box
SuperFamilySSF554559.42E-3256149IPR002100Transcription factor, MADS-box
CDDcd002656.19E-4056134No hitNo description
PROSITE patternPS00350057111IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-275777IPR002100Transcription factor, MADS-box
PfamPF003198.5E-2464111IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-277792IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-2792113IPR002100Transcription factor, MADS-box
PfamPF014866.3E-16136218IPR002487Transcription factor, K-box
PROSITE profilePS5129713.048138224IPR002487Transcription 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:0005737Cellular Componentcytoplasm
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: 264 aa     Download sequence    Send to blast
MVSLTPTGHH KDPHHHSCSQ EPREGGGSRR RARSPGLGGL LVGVLLGDFS EEIEMGRGKI  60
EIKRIENTSN RHVTFAKRRA GLVKKAREIS VLCDAEVGVV IFSSAGKLHD FCSPKTTLPR  120
ILEKYQTNSG KILWDEKHKS ISAEIDRVKK ENDNMQIELR HMKGEDLNSL QPKELIAIEE  180
ALQNGQTNLR DKQMEHWKMH RRNEKMLEDE HKLLAFRMHQ QDAELSNGMR EMELGYHHGR  240
DFAPQMPFTF RVQPSHPNLQ EDK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-1855125169Myocyte-specific enhancer factor 2B
1tqe_Q3e-1855125169Myocyte-specific enhancer factor 2B
1tqe_R3e-1855125169Myocyte-specific enhancer factor 2B
1tqe_S3e-1855125169Myocyte-specific enhancer factor 2B
6c9l_A3e-1855125169Myocyte-specific enhancer factor 2B
6c9l_B3e-1855125169Myocyte-specific enhancer factor 2B
6c9l_C3e-1855125169Myocyte-specific enhancer factor 2B
6c9l_D3e-1855125169Myocyte-specific enhancer factor 2B
6c9l_E3e-1855125169Myocyte-specific enhancer factor 2B
6c9l_F3e-1855125169Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. B-class protein required for normal development of lodicules and stamens (whorls 2 and 3). May function as a heterodimer with MADS16. {ECO:0000269|PubMed:9869408}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00080ChIP-seqTransfer from AT5G20240Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBrast08G114200.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF4693110.0KF469311.1 Brachypodium distachyon MADS-box transcription factor 16 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003568421.11e-154MADS-box transcription factor 4-like isoform X2
SwissprotQ407031e-131MADS4_ORYSJ; MADS-box transcription factor 4
TrEMBLI1HJ941e-153I1HJ94_BRADI; Uncharacterized protein
STRINGBRADI2G24940.21e-153(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP34343877
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G20240.13e-77MIKC_MADS family protein
Publications ? help Back to Top
  1. Ronai Z, et al.
    Transcription factor binding study by capillary zone electrophoretic mobility shift assay.
    Electrophoresis, 2003. 24(1-2): p. 96-100
    [PMID:12652578]
  2. 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]
  3. Kang HG,An G
    Morphological alterations by ectopic expression of the rice OsMADS4 gene in tobacco plants.
    Plant Cell Rep., 2005. 24(2): p. 120-6
    [PMID:15703945]
  4. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  5. Chen C, et al.
    Adapting rice anther culture to gene transformation and RNA interference.
    Sci. China, C, Life Sci., 2006. 49(5): p. 414-28
    [PMID:17172048]
  6. 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]
  7. 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]
  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. Wang H, et al.
    OsMADS32 interacts with PI-like proteins and regulates rice flower development.
    J Integr Plant Biol, 2015. 57(5): p. 504-13
    [PMID:25081486]