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 BGIOSGA033356-PA
Common NameMADS56, OsI_033300
Organism
Oryza sativa subsp. indica
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: 233aa    MW: 26275.1 Da    PI: 9.924
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
BGIOSGA033356-PAgenomeRISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.88.1e-30959151
                      S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
            SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                      krien + rqvtfskRrng+lKKA+ELSvLCdaeva+i+fs++g+lye++s
  BGIOSGA033356-PA  9 KRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFAS 59
                      79***********************************************86 PP
2K-box63.11e-2179171698
             K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                       ++++ +++ ++ + +   L k++e L ++ R++lGe+Le +s++eL+ Le +Leksl +iR kK+ell +qi +l++ke+ l ++n++Lr k 
  BGIOSGA033356-PA  79 NNKTIQQDIQQVKDDTLGLAKKLEALDESRRKILGENLEGCSIEELRGLEMKLEKSLHNIRLKKTELLERQIAKLKEKERTLLKDNENLRGKH 171
                       445678889999*****************************************************************************9885 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.1E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.314161IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-31385IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-30323IPR002100Transcription factor, MADS-box
CDDcd002652.66E-41379No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.6E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-303859IPR002100Transcription factor, MADS-box
PfamPF014862.0E-2184170IPR002487Transcription factor, K-box
PROSITE profilePS5129713.44787177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010048Biological Processvernalization response
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
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: 233 aa     Download sequence    Send to blast
MVRGRTELKR IENPTSRQVT FSKRRNGLLK KAFELSVLCD AEVALIVFSP RGRLYEFASA  60
PSLQKTIDRY KAYTKDHVNN KTIQQDIQQV KDDTLGLAKK LEALDESRRK ILGENLEGCS  120
IEELRGLEMK LEKSLHNIRL KKTELLERQI AKLKEKERTL LKDNENLRGK HRNLEAAALV  180
ANHMTTTTAP AAWPRDVPMT SSTAGAADAM DVETDLYIGL PGTERSSNRS ETG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A9e-18177176MEF2C
5f28_B9e-18177176MEF2C
5f28_C9e-18177176MEF2C
5f28_D9e-18177176MEF2C
6byy_A1e-17177176MEF2 CHIMERA
6byy_B1e-17177176MEF2 CHIMERA
6byy_C1e-17177176MEF2 CHIMERA
6byy_D1e-17177176MEF2 CHIMERA
6bz1_A1e-17177176MEF2 CHIMERA
6bz1_B1e-17177176MEF2 CHIMERA
6bz1_C1e-17177176MEF2 CHIMERA
6bz1_D1e-17177176MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.378130.0callus| flower| leaf| panicle| root| seed| stem
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1419650.0AF141965.1 Oryza sativa MADS-box protein FDRMADS8 mRNA, complete cds.
GenBankCT8325590.0CT832559.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSN008N04, full insert sequence.
GenBankEU5192290.0EU519229.1 Oryza sativa Indica Group cultivar MR84 MADS-box protein UMS1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015614799.11e-168MADS-box transcription factor 56
SwissprotA2Z9Q71e-172MAD56_ORYSI; MADS-box transcription factor 56
TrEMBLA0A0E0IVI51e-170A0A0E0IVI5_ORYNI; Uncharacterized protein
TrEMBLA0A0E0IVI61e-170A0A0E0IVI6_ORYNI; Uncharacterized protein
TrEMBLB1Q0C61e-170B1Q0C6_ORYSI; MADS-box protein UMS1
STRINGONIVA10G18680.11e-170(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP14133379
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.17e-70AGAMOUS-like 19