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 RrC625_p4
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MIKC_MADS
Protein Properties Length: 224aa    MW: 26131.8 Da    PI: 8.2031
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC625_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF756e-24959151
               S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
     SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
               k+i+n++nrq+t+skR++g++KKA+ELS+LCd++ a+++fs++++l  +ss
  RrC625_p4  9 KPIQNSTNRQITYSKRKKGLIKKAYELSTLCDIDLALLMFSPSDRLCLFSS 59
               68*******************************************988875 PP
2K-box18.67.9e-08115184776
      K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleq 76 
                k++  ++ e+l++e+ +Lk++++  ++e+R++  + +   s++e++  e++L + l+++ +++++ll ++
  RrC625_p4 115 KRQGIKNKEELEKEVCRLKQQLHISEEELRKFEPDPVRFTSMEEMEACETHLLSTLTRVVQRREHLLSRS 184
                456678899*********************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006626.086161IPR002100Transcription factor, MADS-box
SMARTSM004327.9E-30160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.35E-24261IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-22323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003198.2E-221155IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-222338IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-223859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005829Cellular Componentcytosol
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 224 aa     Download sequence    Send to blast
MGRAKLEIKP IQNSTNRQIT YSKRKKGLIK KAYELSTLCD IDLALLMFSP SDRLCLFSSQ  60
TRYILLISSS RTFHAFQEYF RSSFSAWKIE DVLEKYINLP DQERDNAIVF PDQSKRQGIK  120
NKEELEKEVC RLKQQLHISE EELRKFEPDP VRFTSMEEME ACETHLLSTL TRVVQRREHL  180
LSRSCGAPST QQSMENIEGW EPEAESKQAR IIANSAYASN QLRF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A4e-15159159MEF2 CHIMERA
6byy_B4e-15159159MEF2 CHIMERA
6byy_C4e-15159159MEF2 CHIMERA
6byy_D4e-15159159MEF2 CHIMERA
6bz1_A4e-15159159MEF2 CHIMERA
6bz1_B4e-15159159MEF2 CHIMERA
6bz1_C4e-15159159MEF2 CHIMERA
6bz1_D4e-15159159MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that forms heterodimers with the MADS-box proteins AGL30 and AGL65 and is involved in the regulation of pollen maturation at the late stages of pollen development and pollen tube growth. {ECO:0000269|PubMed:19211705}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894141e-111AC189414.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB061K11, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018455529.11e-128PREDICTED: agamous-like MADS-box protein AGL66
SwissprotQ9LM464e-71AG104_ARATH; Agamous-like MADS-box protein AGL104
TrEMBLA0A0D3D1G61e-114A0A0D3D1G6_BRAOL; Uncharacterized protein
TrEMBLA0A3P6GWU61e-114A0A3P6GWU6_BRAOL; Uncharacterized protein
STRINGBo6g121610.11e-115(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM21792365
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77950.21e-102AGAMOUS-like 67
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]