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.006G213900.1.p
Common NameSb06g028420, SORBIDRAFT_06g028420
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: 258aa    MW: 29790 Da    PI: 9.338
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G213900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF84.27.8e-27959151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          k+ien +nrqvtfskRr g++KKA+EL +LCda++ viifs +g++yeyss
  Sobic.006G213900.1.p  9 KKIENPTNRQVTFSKRRMGLFKKANELAILCDAQIGVIIFSGSGRMYEYSS 59
                          68***********************************************96 PP
2K-box48.24.8e-17851591487
                 K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnelll.eqieelqkkekel 87 
                           +++  qe++++k+e + L+    +++GedL + s+++L +Leqq+e sl k+R +K+ell  +q+ e +++e  +
  Sobic.006G213900.1.p  85 QQKIIQEMTRMKDERNRLRMIMAQYMGEDLATFSVQDLSNLEQQIEFSLYKVRLRKQELLDhQQLLEIRQREMHI 159
                           68899*******************************************************625678888888765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.357161IPR002100Transcription factor, MADS-box
SMARTSM004324.4E-39160IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.33E-30279IPR002100Transcription factor, MADS-box
CDDcd002653.75E-39276No hitNo description
PRINTSPR004041.4E-27323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-273859IPR002100Transcription factor, MADS-box
PfamPF014862.9E-1381160IPR002487Transcription factor, K-box
PROSITE profilePS5129711.12685186IPR002487Transcription 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: 258 aa     Download sequence    Send to blast
MGRGKVELKK IENPTNRQVT FSKRRMGLFK KANELAILCD AQIGVIIFSG SGRMYEYSSP  60
PWRIASIFDR YLKAPSTRFE EMDIQQKIIQ EMTRMKDERN RLRMIMAQYM GEDLATFSVQ  120
DLSNLEQQIE FSLYKVRLRK QELLDHQQLL EIRQREMHIP GEQSGYLCLM NQAIARGQQQ  180
QQAQAGEMAG INQRPFPWWD VGASGSGSQS QQQQLPGRDA AESSMTALQL SPQLHEYRLQ  240
PRQPNLQQDA NVHGWLW*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-16160160MEF2 CHIMERA
6byy_B1e-16160160MEF2 CHIMERA
6byy_C1e-16160160MEF2 CHIMERA
6byy_D1e-16160160MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G213900.1.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
GenBankBT0385320.0BT038532.1 Zea mays full-length cDNA clone ZM_BFb0284C04 mRNA, complete cds.
GenBankBT0691330.0BT069133.1 Zea mays full-length cDNA clone ZM_BFb0202H05 mRNA, complete cds.
GenBankHQ8587370.0HQ858737.1 Zea mays clone UT1435 MADS transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002447090.20.0MADS-box transcription factor 31
SwissprotQ84NC22e-89MAD31_ORYSJ; MADS-box transcription factor 31
TrEMBLA0A1Z5REZ90.0A0A1Z5REZ9_SORBI; Uncharacterized protein
STRINGSb06g028420.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP185037100
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G23260.21e-40MIKC_MADS family protein
Publications ? help Back to Top
  1. Schilling S, et al.
    Non-canonical structure, function and phylogeny of the Bsister MADS-box gene OsMADS30 of rice (Oryza sativa).
    Plant J., 2015. 84(6): p. 1059-72
    [PMID:26473514]