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.010G050500.1.p
Common NameSb10g004390, SORBIDRAFT_10g004390
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: 226aa    MW: 25947.4 Da    PI: 7.4587
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.010G050500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.26.1e-30959151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          krienk+ rqvtf+kRrng+lKKA+ELSvLCdaeva+iifss+g+l+e+s+
  Sobic.010G050500.1.p  9 KRIENKISRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSSRGRLFEFST 59
                          79***********************************************96 PP
2K-box96.93.2e-328617214100
                 K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                           + + +qe+ kLk ++e Lq++qR+llGedL++L++keL+qLe+q+e slk+iRs Kn+ +l+q+ +l++ke++lq++nk+Lr+k++e
  Sobic.010G050500.1.p  86 ELNNYQEYLKLKTKVEFLQTTQRNLLGEDLGPLNVKELEQLENQIEISLKHIRSSKNQQMLDQLFDLKRKEQQLQDANKDLRRKIQE 172
                           457899*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.8E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.207161IPR002100Transcription factor, MADS-box
CDDcd002653.06E-42278No hitNo description
SuperFamilySSF554551.02E-32288IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.3E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-323859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129715.886176IPR002487Transcription factor, K-box
PfamPF014868.5E-2888171IPR002487Transcription 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: 226 aa     Download sequence    Send to blast
MGRGKVELKR IENKISRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSS RGRLFEFSTS  60
SCMYKTLERY RSCNFASEAS APLEAELNNY QEYLKLKTKV EFLQTTQRNL LGEDLGPLNV  120
KELEQLENQI EISLKHIRSS KNQQMLDQLF DLKRKEQQLQ DANKDLRRKI QETSEENVLR  180
LSCQDIGCSG SSGHGDEANQ ERLHLALDPS LHIGYQAYMD HMNND*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A3e-25761703101Developmental protein SEPALLATA 3
4ox0_B3e-25761703101Developmental protein SEPALLATA 3
4ox0_C3e-25761703101Developmental protein SEPALLATA 3
4ox0_D3e-25761703101Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.209635e-94ovary| panicle
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers. Weakly expressed in carpels. {ECO:0000269|PubMed:9085264}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
UniProtProbable transcription factor. May be involved in the control of flowering time. {ECO:0000269|PubMed:16217607, ECO:0000269|PubMed:9085264, ECO:0000269|Ref.8}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.010G050500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY8274710.0AY827471.1 Sorghum bicolor MADS box transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002437883.11e-165MADS-box transcription factor 5
SwissprotA2Y9P01e-134MADS5_ORYSI; MADS-box transcription factor 5
SwissprotQ0DEB81e-134MADS5_ORYSJ; MADS-box transcription factor 5
TrEMBLC5Z4T91e-164C5Z4T9_SORBI; Uncharacterized protein
STRINGSb10g004390.11e-164(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP22213264
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02310.12e-73MIKC_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. Cui R, et al.
    Functional conservation and diversification of class E floral homeotic genes in rice (Oryza sativa).
    Plant J., 2010. 61(5): p. 767-81
    [PMID:20003164]