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 Oropetium_20150105_05054A
Organism
Oropetium thomaeum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium
Family MIKC_MADS
Protein Properties Length: 229aa    MW: 26501.2 Da    PI: 9.2912
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_05054AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.91.1e-27959151
                               S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                     SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                               krien++nrqvtf+kRr+gi KKA E+ vLCdaev v+ifss gklyey++
  Oropetium_20150105_05054A  9 KRIENTTNRQVTFTKRRAGIVKKAREIGVLCDAEVGVVIFSSAGKLYEYCT 59
                               79***********************************************96 PP
2K-box51.73.8e-1871169194
                      K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKn.....ellleqiee 79 
                                yq++sgk l+  k++sl  e++ +kke++++q e+R l GedL+sL  +eL  +e +L+++ ++ R+k+      + ++++ + 
  Oropetium_20150105_05054A  71 YQTNSGKILWGDKHKSLGAEIDMVKKENDSMQAELRYLNGEDLNSLHPRELIAIEGALQNGQTNLREKQAiirwlQSFMDHWRL 154
                                79999999************************************************************9644333556666666 PP

                      K-box  80 lqkkekelqeenkaL 94 
                                 +k  k l++e++ L
  Oropetium_20150105_05054A 155 RKKTGKILEDEHRLL 169
                                666666666666655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.6E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.113161IPR002100Transcription factor, MADS-box
SuperFamilySSF554554.71E-32295IPR002100Transcription factor, MADS-box
CDDcd002656.24E-41280No hitNo description
PRINTSPR004041.3E-28323IPR002100Transcription factor, MADS-box
PfamPF003197.7E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-283859IPR002100Transcription factor, MADS-box
PfamPF014862.1E-1382171IPR002487Transcription factor, K-box
PROSITE profilePS5129710.52984179IPR002487Transcription 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: 229 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FTKRRAGIVK KAREIGVLCD AEVGVVIFSS AGKLYEYCTP  60
RTTLSRILEK YQTNSGKILW GDKHKSLGAE IDMVKKENDS MQAELRYLNG EDLNSLHPRE  120
LIAIEGALQN GQTNLREKQA IIRWLQSFMD HWRLRKKTGK ILEDEHRLLT IRAHEQDVEL  180
SGGMRDLKIG YQYHQIHHDR GFTSQMPFTF RVQPSHPNLQ EDEEEYSH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P1e-19171169Myocyte-specific enhancer factor 2B
1tqe_Q1e-19171169Myocyte-specific enhancer factor 2B
1tqe_R1e-19171169Myocyte-specific enhancer factor 2B
1tqe_S1e-19171169Myocyte-specific enhancer factor 2B
6c9l_A1e-19171169Myocyte-specific enhancer factor 2B
6c9l_B1e-19171169Myocyte-specific enhancer factor 2B
6c9l_C1e-19171169Myocyte-specific enhancer factor 2B
6c9l_D1e-19171169Myocyte-specific enhancer factor 2B
6c9l_E1e-19171169Myocyte-specific enhancer factor 2B
6c9l_F1e-19171169Myocyte-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapOropetium_20150105_05054A
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ2929611e-139AJ292961.1 Zea mays mRNA for putative MADS-domain transcription factor (m29 gene).
GenBankBT0542771e-139BT054277.1 Zea mays full-length cDNA clone ZM_BFb0210A14 mRNA, complete cds.
GenBankKJ7269301e-139KJ726930.1 Zea mays clone pUT3475 MADS transcription factor (MADS29) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004962034.11e-127MADS-box transcription factor 4
SwissprotQ407031e-115MADS4_ORYSJ; MADS-box transcription factor 4
TrEMBLA0A127J9I81e-126A0A127J9I8_9POAL; PISTILLATA-like MADS-box transcription factor PI-1
STRINGSi023214m1e-126(Setaria italica)
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
AT5G20240.14e-62MIKC_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]