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 KN538771.1_FGP006
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family MIKC_MADS
Protein Properties Length: 166aa    MW: 18874.6 Da    PI: 7.5939
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538771.1_FGP006genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF83.71.1e-26954146
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEE CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgkl 46
                       krien +nrqvt+skRr+gi+KKA EL vLCda+va+i+fsstg++
  KN538771.1_FGP006  9 KRIENATNRQVTYSKRRTGIMKKARELTVLCDAQVAIIMFSSTGNI 54
                       79******************************************87 PP
2K-box34.21e-12731303698
              K-box  36 RhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                         +++GedL+ L++ eL+ Leq+++ +lk      ++++++q+e+ +kk k   e+ k+L+++l
  KN538771.1_FGP006  73 QQRMGEDLDGLEFDELRGLEQNVDAALK-----EYHVITTQTETYKKKVKHSYEAYKTLQQEL 130
                        699************************7.....59************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.6E-34160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.1154IPR002100Transcription factor, MADS-box
CDDcd002654.03E-36270No hitNo description
SuperFamilySSF554558.89E-29273IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-24323IPR002100Transcription factor, MADS-box
PfamPF003191.0E-221054IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-242338IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-243859IPR002100Transcription factor, MADS-box
PROSITE profilePS512977.15844136IPR002487Transcription factor, K-box
PfamPF014864.6E-873130IPR002487Transcription 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: 166 aa     Download sequence    Send to blast
MGRGKIEIKR IENATNRQVT YSKRRTGIMK KARELTVLCD AQVAIIMFSS TGNIKGIFDR  60
YQQAIGTSLW IEQQRMGEDL DGLEFDELRG LEQNVDAALK EYHVITTQTE TYKKKVKHSY  120
EAYKTLQQEL GLREEPAFGF VDNTGGGLVH YTAKEIIAVI NNVILD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A9e-16154154MEF2C
5f28_B9e-16154154MEF2C
5f28_C9e-16154154MEF2C
5f28_D9e-16154154MEF2C
Search in ModeBase
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN538771.1_FGP006
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0033232e-85AB003323.1 Oryza sativa Japonica Group mRNA for MADS box-like protein, complete cds, clone:E20969.
GenBankAK0693172e-85AK069317.1 Oryza sativa Japonica Group cDNA clone:J023014M24, full insert sequence.
GenBankAK2892482e-85AK289248.1 Oryza sativa Japonica Group cDNA, clone: J100079D02, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641661.11e-89MADS-box transcription factor 16
SwissprotQ944S99e-91MAD16_ORYSJ; MADS-box transcription factor 16
TrEMBLA0A0E0LFL19e-99A0A0E0LFL1_ORYPU; Uncharacterized protein
STRINGOPUNC06G24880.11e-99(Oryza punctata)
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
AT3G54340.13e-38MIKC_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. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]
  12. 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]