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 LOC_Os06g11330.1
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family MIKC_MADS
Protein Properties Length: 200aa    MW: 22167.9 Da    PI: 4.6867
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g11330.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF81.17.2e-261059251
                      ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
            SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                      rie+   rqvtfskRr g++KKAeEL vLCda+va+++fsstgkl  ++s
  LOC_Os06g11330.1 10 RIESAAARQVTFSKRRRGLFKKAEELAVLCDADVALVVFSSTGKLSQFAS 59
                      8*********************************************9986 PP
2K-box50.21.1e-17861493598
             K-box  35 qRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                         ++ Ge+Le Ls++eLqq+e++Le +l+++  +K++ ++++i+elq+k  +l een++Lr ++
  LOC_Os06g11330.1  86 DLNMRGEELEGLSVEELQQMEKNLEAGLQRVLCTKDQQFMQEISELQRKGIQLAEENMRLRDQM 149
                       369*********************************************************9885 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004329.9E-35160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006628.104161IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004046.6E-24323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.88E-29374IPR002100Transcription factor, MADS-box
PfamPF003193.6E-251057IPR002100Transcription factor, MADS-box
CDDcd002652.33E-321375No hitNo description
PRINTSPR004046.6E-242338IPR002100Transcription factor, MADS-box
PRINTSPR004046.6E-243859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.08759155IPR002487Transcription factor, K-box
PfamPF014861.5E-1588149IPR002487Transcription 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: 200 aa     Download sequence    Send to blast
MARERREIRR IESAAARQVT FSKRRRGLFK KAEELAVLCD ADVALVVFSS TGKLSQFASS  60
NMNEIIDKYT THSKNLGKTD KQPSIDLNMR GEELEGLSVE ELQQMEKNLE AGLQRVLCTK  120
DQQFMQEISE LQRKGIQLAE ENMRLRDQMP QVPTAGLAVP DTENVLTEDG QSSESVMTAL  180
NSGSSQDNDD GSDISLKLG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-20173173MEF2C
5f28_B2e-20173173MEF2C
5f28_C2e-20173173MEF2C
5f28_D2e-20173173MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.498370.0callus
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO379885220.0
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and developing panicles. {ECO:0000269|PubMed:14701936, ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g11330.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g11330
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3452230.0AY345223.2 Oryza sativa (japonica cultivar-group) transcription factor MADS55 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641679.11e-129MADS-box transcription factor 55 isoform X2
SwissprotQ69TG51e-127MAD55_ORYSJ; MADS-box transcription factor 55
TrEMBLA0A0E0DYW91e-142A0A0E0DYW9_9ORYZ; Uncharacterized protein
STRINGOS06T0217300-011e-129(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.16e-35MIKC_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. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  3. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]
  4. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]