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 Niben101Scf00320g01005.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family MIKC_MADS
Protein Properties Length: 228aa    MW: 26523.3 Da    PI: 9.7936
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00320g01005.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.42.5e-30959151
                              S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                    SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                              krien++nrqvtf+kRrng+lKKA+ELSvLC+ae+a+i+fss+g++yeys+
  Niben101Scf00320g01005.1  9 KRIENNTNRQVTFCKRRNGLLKKAYELSVLCEAEIALIVFSSRGRVYEYSN 59
                              79***********************************************95 PP
2K-box101.41.2e-33791738100
                     K-box   8 s..leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                               +  ++e +a+ +qqe++kL+++i+++q+++Rhl+Ge+L+sL+++eL+qLe++Le+++++iRskK+e++l+++e+lqk+e +l++e
  Niben101Scf00320g01005.1  79 ActTQELNAQFYQQESKKLRQQIQMIQNSNRHLVGEGLSSLNVRELKQLENRLERGITRIRSKKHEMILAETENLQKREIQLEQE 163
                               24478899***************************************************************************** PP

                     K-box  91 nkaLrkklee 100
                               n  Lr+k++e
  Niben101Scf00320g01005.1 164 NAFLRSKIAE 173
                               *******986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004328.6E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.347161IPR002100Transcription factor, MADS-box
CDDcd002653.07E-41274No hitNo description
SuperFamilySSF554552.49E-32276IPR002100Transcription factor, MADS-box
PRINTSPR004049.5E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.6E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004049.5E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004049.5E-323859IPR002100Transcription factor, MADS-box
PfamPF014866.9E-2783171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.89187177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
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: 228 aa     Download sequence    Send to blast
MGRGKIEIKR IENNTNRQVT FCKRRNGLLK KAYELSVLCE AEIALIVFSS RGRVYEYSNN  60
NIKATIDRYK KATSETSNAC TTQELNAQFY QQESKKLRQQ IQMIQNSNRH LVGEGLSSLN  120
VRELKQLENR LERGITRIRS KKHEMILAET ENLQKREIQL EQENAFLRSK IAENERLQEL  180
SMMPTGGQEY SAIQQYLARN MLQLNMMEGG IPSYHQLPAD KKSLELHE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-20169169Myocyte-specific enhancer factor 2B
1tqe_Q2e-20169169Myocyte-specific enhancer factor 2B
1tqe_R2e-20169169Myocyte-specific enhancer factor 2B
1tqe_S2e-20169169Myocyte-specific enhancer factor 2B
6c9l_A2e-20169169Myocyte-specific enhancer factor 2B
6c9l_B2e-20169169Myocyte-specific enhancer factor 2B
6c9l_C2e-20169169Myocyte-specific enhancer factor 2B
6c9l_D2e-20169169Myocyte-specific enhancer factor 2B
6c9l_E2e-20169169Myocyte-specific enhancer factor 2B
6c9l_F2e-20169169Myocyte-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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009770275.11e-164PREDICTED: agamous-like MADS-box protein AGL11
SwissprotF6I4571e-115AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A1U7W7P31e-163A0A1U7W7P3_NICSY; agamous-like MADS-box protein AGL11
STRINGXP_009770275.11e-164(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4024625
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-101MIKC_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]