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 Sobic.004G306500.2.p
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family MIKC_MADS
Protein Properties Length: 175aa    MW: 19962.6 Da    PI: 6.2956
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G306500.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.11e-27959151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          krie+   rqvtfskRr g++KKAeELSvLCda+va+i+fsstgkl  ++s
  Sobic.004G306500.2.p  9 KRIESAAARQVTFSKRRRGLFKKAEELSVLCDADVALIVFSSTGKLSQFAS 59
                          79*********************************************9986 PP
2K-box56.89.9e-20901701898
                 K-box  18 qqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                           + ++a+L++++ +    +R++ Ge+Le Ls++eLqqLe++Le++l ++ ++K++ +leqi++l +k  +l een++Lr+++
  Sobic.004G306500.2.p  90 HSKYANLNEQLVEASLRLRQMRGEELEGLSVEELQQLEKNLETGLHRVLQTKDQQFLEQISDLERKSTQLAEENMQLRNQV 170
                           334555666666666889************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.623161IPR002100Transcription factor, MADS-box
SMARTSM004322.0E-36160IPR002100Transcription factor, MADS-box
CDDcd002658.81E-39275No hitNo description
PRINTSPR004044.4E-25323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.35E-30374IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-253859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.42286174IPR002487Transcription factor, K-box
PfamPF014861.8E-1792170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009266Biological Processresponse to temperature stimulus
GO:0009910Biological Processnegative regulation of flower development
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0030154Biological Processcell differentiation
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048438Biological Processfloral whorl development
GO:0005634Cellular Componentnucleus
GO:0000900Molecular Functiontranslation repressor activity, nucleic acid binding
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: 175 aa     Download sequence    Send to blast
MARERREIKR IESAAARQVT FSKRRRGLFK KAEELSVLCD ADVALIVFSS TGKLSQFASS  60
SMNEIIDKYN THSKNLGKAE EPSLDLNLEH SKYANLNEQL VEASLRLRQM RGEELEGLSV  120
EELQQLEKNL ETGLHRVLQT KDQQFLEQIS DLERKSTQLA EENMQLRNQV TSLL*
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
Sbi.38860.0embryo| leaf| pollen
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the L1 cell layer of the embryo 2 days after pollination. {ECO:0000269|PubMed:15682279}.
UniprotTISSUE SPECIFICITY: Expressed in palea and stamen primordia. {ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. May be required for spikelet (rice flower) development. {ECO:0000269|PubMed:15682279}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00272DAPTransfer from AT2G22540Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G306500.2.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
GenBankAJ4306330.0AJ430633.1 Zea mays mRNA for putative MADS-domain transcription factor (m19 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021314301.11e-119MADS-box transcription factor 22 isoform X2
SwissprotQ9XJ661e-111MAD22_ORYSJ; MADS-box transcription factor 22
TrEMBLA0A194YTJ11e-120A0A194YTJ1_SORBI; Uncharacterized protein
STRINGSb04g033930.11e-118(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.12e-59MIKC_MADS family protein
Publications ? help Back to Top
  1. 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]
  2. 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]