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 XP_009126602.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family M-type_MADS
Protein Properties Length: 281aa    MW: 32072.2 Da    PI: 7.7108
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009126602.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF72.14.8e-231862549
                    SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
          SRF-TF  5 nksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                     + n qvtfskR+ng++KKA EL++LCdaeva+ +fs++gk+y +
  XP_009126602.1 18 KENNLQVTFSKRKNGLFKKACELCTLCDAEVAIFVFSPSGKVYSF 62
                    56788**************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006623.282666IPR002100Transcription factor, MADS-box
SMARTSM004321.7E-30665IPR002100Transcription factor, MADS-box
CDDcd002656.69E-31775No hitNo description
SuperFamilySSF554553.27E-25781IPR002100Transcription factor, MADS-box
PRINTSPR004046.2E-19828IPR002100Transcription factor, MADS-box
PfamPF003198.6E-241662IPR002100Transcription factor, MADS-box
PRINTSPR004046.2E-192843IPR002100Transcription factor, MADS-box
PRINTSPR004046.2E-194364IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 281 aa     Download sequence    Send to blast
MMKKSKGRQK TKMVKMDKEN NLQVTFSKRK NGLFKKACEL CTLCDAEVAI FVFSPSGKVY  60
SFGHLDVETI INRFEGIENP PLNPQPNMQL DEIHRNSPIQ DLNNDLTELM NQLELEQKKT  120
EDLKNKRKNS KVPEIWLKDS IGGLDLGQAK EFKGKLENLK KQVRYEAFKI LQGRYPHPSF  180
YVGSSSNALF GVDGGININP NMNLFDQRRM VNMNNFYNHN MALPNHPLPF GNYGHAEGFV  240
PGYNYIPEPN PTENQNPSSK EENEAGNEHH HDGHSPDPRS D
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A5e-14796291MEF2 CHIMERA
6bz1_B5e-14796291MEF2 CHIMERA
6bz1_C5e-14796291MEF2 CHIMERA
6bz1_D5e-14796291MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269|PubMed:18334668}.
UniprotTISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269|PubMed:18334668}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269|PubMed:18334668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009126602.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009126602.10.0PREDICTED: agamous-like MADS-box protein AGL62
RefseqXP_013713194.10.0agamous-like MADS-box protein AGL62
SwissprotQ9FKK26e-91AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A078F3Y90.0A0A078F3Y9_BRANA; BnaA02g06310D protein
TrEMBLA0A398AE400.0A0A398AE40_BRACM; Uncharacterized protein
STRINGBra020247.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2328644
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.11e-87AGAMOUS-like 62
Publications ? help Back to Top
  1. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  2. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  3. Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C
    Auxin production in the endosperm drives seed coat development in Arabidopsis.
    Elife, 2017.
    [PMID:27848912]
  4. Fiume E,Coen O,Xu W,Lepiniec L,Magnani E
    Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal.
    Plant Signal Behav, 2017. 12(8): p. e1339000
    [PMID:28613109]
  5. 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]