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 Vradi0368s00040.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family MIKC_MADS
Protein Properties Length: 226aa    MW: 26084.9 Da    PI: 9.8753
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi0368s00040.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF100.18.9e-32959151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Vradi0368s00040.1  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 59
                       79***********************************************95 PP
2K-box108.95.7e-3679175399
              K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                        +ss++ ++e +a+++qqe+akL+++i++Lq+++Rhl+G+ L++L++keL+qLe++Le+++++iRskK+e+ll++ie+ qk+e el++en +L
  Vradi0368s00040.1  79 HSSTSTTTEINAQYYQQESAKLRQQIQMLQNSNRHLMGDALSTLTVKELKQLENRLERGITRIRSKKHEMLLAEIEYFQKREIELENENLCL 170
                        5666669999********************************************************************************** PP

              K-box  95 rkkle 99 
                        r+k+ 
  Vradi0368s00040.1 171 RTKIT 175
                        **986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.3E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006634.048161IPR002100Transcription factor, MADS-box
CDDcd002651.43E-41279No hitNo description
SuperFamilySSF554559.16E-32282IPR002100Transcription factor, MADS-box
PRINTSPR004045.2E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004045.2E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004045.2E-333859IPR002100Transcription factor, MADS-box
PfamPF014861.1E-2687174IPR002487Transcription factor, K-box
PROSITE profilePS5129715.15990180IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
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: 226 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRLYEYSNN  60
KSVYIRSTIE RYKKACSDHS STSTTTEINA QYYQQESAKL RQQIQMLQNS NRHLMGDALS  120
TLTVKELKQL ENRLERGITR IRSKKHEMLL AEIEYFQKRE IELENENLCL RTKITDVERI  180
QQVNMVSGPE LNAIQALASR NFFNPNMMEG GSVYPQSDKK ILHLG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P5e-20185182Myocyte-specific enhancer factor 2B
1tqe_Q5e-20185182Myocyte-specific enhancer factor 2B
1tqe_R5e-20185182Myocyte-specific enhancer factor 2B
1tqe_S5e-20185182Myocyte-specific enhancer factor 2B
6c9l_A5e-20185182Myocyte-specific enhancer factor 2B
6c9l_B5e-20185182Myocyte-specific enhancer factor 2B
6c9l_C5e-20185182Myocyte-specific enhancer factor 2B
6c9l_D5e-20185182Myocyte-specific enhancer factor 2B
6c9l_E5e-20185182Myocyte-specific enhancer factor 2B
6c9l_F5e-20185182Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi0368s00040.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3718990.0DQ371899.1 Glycine max MADS domain transporter AGL11 (AGL11) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001236130.11e-158MADS domain transporter AGL11
RefseqXP_006580912.11e-158MADS domain transporter AGL11 isoform X1
RefseqXP_006580913.11e-158MADS domain transporter AGL11 isoform X2
RefseqXP_014631604.11e-158MADS domain transporter AGL11 isoform X1
RefseqXP_028238522.11e-158agamous-like MADS-box protein AGL11
RefseqXP_028238523.11e-158agamous-like MADS-box protein AGL11
RefseqXP_028238524.11e-158agamous-like MADS-box protein AGL11
SwissprotF6I4571e-134AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A445KH221e-157A0A445KH22_GLYSO; Agamous-like MADS-box protein AGL11 isoform A
TrEMBLB9MSS81e-157B9MSS8_SOYBN; MADS domain transporter AGL11
STRINGGLYMA06G48270.21e-157(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68429102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-119MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  4. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]
  5. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  6. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]