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 Niben101Scf03350g03001.1
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: 231aa    MW: 27047 Da    PI: 10.3451
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf03350g03001.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF85.62.8e-273377145
                              S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSE CS
                    SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgk 45
                              krien++nrqvtf+kRrng+lKKA+ELSvLCdae+a+i+fs++g+
  Niben101Scf03350g03001.1 33 KRIENNTNRQVTFCKRRNGLLKKAYELSVLCDAEIALIVFSTRGR 77
                              79****************************************996 PP
2K-box87.13.5e-2993178691
                     K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                                  ++e +a+ +qqe++kL+++i+ +q+++Rhl+Ge+++sL+++eL+qLe++Le++l++iRskK+e++l++ie+lqk+  e+++ 
  Niben101Scf03350g03001.1  93 AYTTQELNAQFYQQESKKLRQQIQLMQNTNRHLVGEGVSSLNVRELKQLENRLERGLTRIRSKKHEMILAEIENLQKRIAENERL 177
                               33478999**********************************************************************9998876 PP

                     K-box  91 n 91 
                               +
  Niben101Scf03350g03001.1 178 Q 178
                               5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.4032577IPR002100Transcription factor, MADS-box
SMARTSM004322.0E-342584IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.15E-272581IPR002100Transcription factor, MADS-box
CDDcd002651.97E-352692No hitNo description
PRINTSPR004048.1E-272747IPR002100Transcription factor, MADS-box
PfamPF003196.6E-243477IPR002100Transcription factor, MADS-box
PRINTSPR004048.1E-274762IPR002100Transcription factor, MADS-box
PRINTSPR004048.1E-276283IPR002100Transcription factor, MADS-box
PfamPF014861.0E-2197174IPR002487Transcription factor, K-box
PROSITE profilePS5129714.28101189IPR002487Transcription 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: 231 aa     Download sequence    Send to blast
MNFFSHSYVF GIRVTFGKGF EIRRMGRGKI EIKRIENNTN RQVTFCKRRN GLLKKAYELS  60
VLCDAEIALI VFSTRGRATI ERYKKATAET SSAYTTQELN AQFYQQESKK LRQQIQLMQN  120
TNRHLVGEGV SSLNVRELKQ LENRLERGLT RIRSKKHEMI LAEIENLQKR IAENERLQEL  180
SMMPTGGQEQ DYNAFQQYYA RNMLQLNMME GMRPSNYDPL LSADKKSLHL H
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-172577153Myocyte-specific enhancer factor 2B
1tqe_Q4e-172577153Myocyte-specific enhancer factor 2B
1tqe_R4e-172577153Myocyte-specific enhancer factor 2B
1tqe_S4e-172577153Myocyte-specific enhancer factor 2B
6c9l_A4e-172577153Myocyte-specific enhancer factor 2B
6c9l_B4e-172577153Myocyte-specific enhancer factor 2B
6c9l_C4e-172577153Myocyte-specific enhancer factor 2B
6c9l_D4e-172577153Myocyte-specific enhancer factor 2B
6c9l_E4e-172577153Myocyte-specific enhancer factor 2B
6c9l_F4e-172577153Myocyte-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_019242987.11e-140PREDICTED: agamous-like MADS-box protein AGL11
SwissprotF6I4572e-88AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A1U7WKY71e-137A0A1U7WKY7_NICSY; agamous-like MADS-box protein AGL11 isoform X1
STRINGXP_009774915.11e-138(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
AT4G09960.14e-80MIKC_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]