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 PDK_30s911131g006
Organism
Phoenix dactylifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Coryphoideae; Phoeniceae; Phoenix
Family MIKC_MADS
Protein Properties Length: 235aa    MW: 27122.7 Da    PI: 9.5546
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PDK_30s911131g006genomePDKView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.51.1e-30959151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       krie ++nrqvtf+kRrng+lKKA+ELSvLCd+eva+iifss+g+lyeys+
  PDK_30s911131g006  9 KRIEKTTNRQVTFCKRRNGLLKKAYELSVLCDVEVALIIFSSRGRLYEYSN 59
                       79***********************************************95 PP
2K-box1102.6e-36791745100
              K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                        sg+  e + ++++qqe+akL+++i+ Lq+ +Rhl+G+ L+sLs+keL+qLe++Le+++++iRskK+ell+++ie++q++e elq++n++Lr+
  PDK_30s911131g006  79 SGSIIEVNSQQYYQQESAKLRRQIQILQNANRHLMGDALSSLSVKELRQLENRLERGITRIRSKKHELLFAEIENMQRREVELQNDNMYLRA 170
                        4444788899********************************************************************************** PP

              K-box  97 klee 100
                        k++e
  PDK_30s911131g006 171 KIAE 174
                        *986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.1E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.983161IPR002100Transcription factor, MADS-box
CDDcd002652.71E-45278No hitNo description
SuperFamilySSF554551.83E-32274IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.4E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-313859IPR002100Transcription factor, MADS-box
PfamPF014869.4E-2884172IPR002487Transcription factor, K-box
PROSITE profilePS5129715.89188178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048366Biological Processleaf development
GO:0048440Biological Processcarpel development
GO:0048443Biological Processstamen development
GO:0048497Biological Processmaintenance of floral organ identity
GO:0090376Biological Processseed trichome differentiation
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: 235 aa     Download sequence    Send to blast
MGRGKIEIKR IEKTTNRQVT FCKRRNGLLK KAYELSVLCD VEVALIIFSS RGRLYEYSNN  60
SIKSTIERYK KASADSSNSG SIIEVNSQQY YQQESAKLRR QIQILQNANR HLMGDALSSL  120
SVKELRQLEN RLERGITRIR SKKHELLFAE IENMQRREVE LQNDNMYLRA KIAENEHATQ  180
QVSMVQAGPE FDALPAFDSR NYYHVNMLEA ATHYLHQQDQ TALHLGYEAK ADPAA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P9e-21173173Myocyte-specific enhancer factor 2B
1tqe_Q9e-21173173Myocyte-specific enhancer factor 2B
1tqe_R9e-21173173Myocyte-specific enhancer factor 2B
1tqe_S9e-21173173Myocyte-specific enhancer factor 2B
6c9l_A9e-21173173Myocyte-specific enhancer factor 2B
6c9l_B9e-21173173Myocyte-specific enhancer factor 2B
6c9l_C9e-21173173Myocyte-specific enhancer factor 2B
6c9l_D9e-21173173Myocyte-specific enhancer factor 2B
6c9l_E9e-21173173Myocyte-specific enhancer factor 2B
6c9l_F9e-21173173Myocyte-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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00609ChIP-seqTransfer from AT4G18960Download
Motif logo
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008786399.11e-173MADS-box transcription factor 3 isoform X1
RefseqXP_008786400.11e-173MADS-box transcription factor 3 isoform X2
SwissprotF6I4571e-114AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A2H3XND71e-172A0A2H3XND7_PHODC; MADS-box transcription factor 3 isoform X2
TrEMBLA0A2H3XNK41e-172A0A2H3XNK4_PHODC; MADS-box transcription factor 3 isoform X1
STRINGXP_008786399.11e-172(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64937144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.11e-107MIKC_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]