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 RrC11168_p2
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: 178aa    MW: 20292.3 Da    PI: 10.2668
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC11168_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.23.5e-312473150
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+++fs++g+lyey+
  RrC11168_p2 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVVFSTRGRLYEYA 73
                 79***********************************************8 PP
2K-box75.61.4e-2595161773
        K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnell 73 
                   s++ea+++++qqe++kL+++i+ +q+ +Rh+lGe+L+sL+lkeL++Le +Lek++++ RskK + +
  RrC11168_p2  95 PSVTEANTQYYQQESSKLRRQIRDIQNLNRHILGESLGSLNLKELKNLEGRLEKGISRARSKKVNSF 161
                  45899**********************************************************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.6E-401675IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.4171676IPR002100Transcription factor, MADS-box
CDDcd002654.89E-431790No hitNo description
SuperFamilySSF554559.42E-331789IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PRINTSPR004045.7E-331838IPR002100Transcription factor, MADS-box
PfamPF003191.3E-262572IPR002100Transcription factor, MADS-box
PRINTSPR004045.7E-333853IPR002100Transcription factor, MADS-box
PRINTSPR004045.7E-335374IPR002100Transcription factor, MADS-box
PfamPF014861.7E-17100161IPR002487Transcription factor, K-box
PROSITE profilePS5129710.067102178IPR002487Transcription 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: 178 aa     Download sequence    Send to blast
MEGGASNEVA ESIKKIGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VVFSTRGRLY EYANSSVRGT IERYKKACSD AVNPPSVTEA NTQYYQQESS KLRRQIRDIQ  120
NLNRHILGES LGSLNLKELK NLEGRLEKGI SRARSKKVNS FLKFLIYASV YHYLQDLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-201684169Myocyte-specific enhancer factor 2B
1tqe_Q2e-201684169Myocyte-specific enhancer factor 2B
1tqe_R2e-201684169Myocyte-specific enhancer factor 2B
1tqe_S2e-201684169Myocyte-specific enhancer factor 2B
6c9l_A2e-201684169Myocyte-specific enhancer factor 2B
6c9l_B2e-201684169Myocyte-specific enhancer factor 2B
6c9l_C2e-201684169Myocyte-specific enhancer factor 2B
6c9l_D2e-201684169Myocyte-specific enhancer factor 2B
6c9l_E2e-201684169Myocyte-specific enhancer factor 2B
6c9l_F2e-201684169Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Interacts genetically with TT16/AGL32 in a partially antagonistic manner during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). {ECO:0000269|PubMed:27776173}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU4243430.0EU424343.1 Brassica napus shatterproof 2 (SHP2) mRNA, SHP2-b allele, complete cds.
GenBankJQ9730830.0JQ973083.1 Brassica napus Shatterproof (SHP2b) mRNA, complete cds.
GenBankJQ9730880.0JQ973088.1 Brassica juncea Shatterproof (SHP2b) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018483390.11e-109PREDICTED: LOW QUALITY PROTEIN: agamous-like MADS-box protein AGL5
SwissprotP293851e-105AGL5_ARATH; Agamous-like MADS-box protein AGL5
TrEMBLV4P1521e-107V4P152_EUTSA; Uncharacterized protein
STRINGXP_006411553.11e-108(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33412350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G42830.23e-95MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Rathnakumar K, et al.
    Angiopoietin-2 mediates thrombin-induced monocyte adhesion and endothelial permeability.
    J. Thromb. Haemost., 2016. 14(8): p. 1655-67
    [PMID:27241812]
  4. Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L
    Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks.
    Development, 2016. 143(18): p. 3372-81
    [PMID:27510967]
  5. Ehlers K, et al.
    The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana.
    PLoS ONE, 2016. 11(10): p. e0165075
    [PMID:27776173]
  6. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  7. Ó'Maoiléidigh DS,Stewart D,Zheng B,Coupland G,Wellmer F
    Floral homeotic proteins modulate the genetic program for leaf development to suppress trichome formation in flowers.
    Development, 2018.
    [PMID:29361563]