PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.010G090200.2.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: 374aa    MW: 41278.8 Da    PI: 4.7884
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.010G090200.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.48e-28958150
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                          krien++nrqvtfskRrng++KKA+ELSvLCd+++a+i+fs++++l  +s
  Sobic.010G090200.2.p  9 KRIENNTNRQVTFSKRRNGLIKKAYELSVLCDIDIALIMFSPSNRLSHFS 58
                          79********************************************9997 PP
2K-box20.22.4e-081121791077
                 K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqi 77 
                            +++ e+lqqe++  + +++ L++++R +  + +   s+ e +  e+ L + l+++ ++K+ ll++++
  Sobic.010G090200.2.p 112 VNSNVEELQQEIRTYQHQLQVLEEQLRMFEPDPVALASMHEVETCEKFLMDTLTRVEERKKYLLCNHM 179
                           57899***********************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004326.4E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.436161IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.63E-30281IPR002100Transcription factor, MADS-box
CDDcd002657.81E-37275No hitNo description
PRINTSPR004041.7E-25323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.5E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-253859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010152Biological Processpollen maturation
GO:0080092Biological Processregulation of pollen tube growth
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 374 aa     Download sequence    Send to blast
MGRVKLQIKR IENNTNRQVT FSKRRNGLIK KAYELSVLCD IDIALIMFSP SNRLSHFSGR  60
RRIEDVITRY INLPEHDRGG VVRNREYLIK MLTQLKCEGD IAEQLAPNKG PVNSNVEELQ  120
QEIRTYQHQL QVLEEQLRMF EPDPVALASM HEVETCEKFL MDTLTRVEER KKYLLCNHMG  180
PFEPSPSDMH HVFGLPPPPQ PPAQQQQHEE EPQGDLGVNA FAGDVSSWFA DGLPTSSIFA  240
GPDPILSFRD QVIFDSMRRD PVVGGVDPGI ASMCHVDQQA PSDDWQQAYT SAELLSALIP  300
STPFPLDDQD AMAPVLTSPM AVPPHMHEQV VEAPGNCSNV NVPVDGDCAA TATPAAAPVA  360
PQEHGLPGAV NIG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-18175174Myocyte-specific enhancer factor 2B
1tqe_Q2e-18175174Myocyte-specific enhancer factor 2B
1tqe_R2e-18175174Myocyte-specific enhancer factor 2B
1tqe_S2e-18175174Myocyte-specific enhancer factor 2B
6byy_A1e-18175174MEF2 CHIMERA
6byy_B1e-18175174MEF2 CHIMERA
6byy_C1e-18175174MEF2 CHIMERA
6byy_D1e-18175174MEF2 CHIMERA
6bz1_A1e-18175174MEF2 CHIMERA
6bz1_B1e-18175174MEF2 CHIMERA
6bz1_C1e-18175174MEF2 CHIMERA
6bz1_D1e-18175174MEF2 CHIMERA
6c9l_A2e-18175174Myocyte-specific enhancer factor 2B
6c9l_B2e-18175174Myocyte-specific enhancer factor 2B
6c9l_C2e-18175174Myocyte-specific enhancer factor 2B
6c9l_D2e-18175174Myocyte-specific enhancer factor 2B
6c9l_E2e-18175174Myocyte-specific enhancer factor 2B
6c9l_F2e-18175174Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in pollen. {ECO:0000269|PubMed:12949148}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that forms a heterodimer with the MADS-box protein AGL30 and is involved in the regulation of pollen maturation at the late stages of pollen development and pollen tube growth. {ECO:0000269|PubMed:19211705}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.010G090200.2.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
GenBankBT0668840.0BT066884.1 Zea mays full-length cDNA clone ZM_BFb0091A09 mRNA, complete cds.
GenBankEU9600630.0EU960063.1 Zea mays clone 221530 MADS-box protein AGL66 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021305679.10.0agamous-like MADS-box protein AGL66 isoform X5
SwissprotQ1PFC26e-72AGL66_ARATH; Agamous-like MADS-box protein AGL66
TrEMBLA0A194YI310.0A0A194YI31_SORBI; Uncharacterized protein
STRINGSb10g007810.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP49533360
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77980.12e-73AGAMOUS-like 66
Publications ? help Back to Top
  1. Zhang S, et al.
    FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development.
    Plant Physiol., 2018. 177(1): p. 285-299
    [PMID:29523711]