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 Itr_sc000188.1_g00024.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family MIKC_MADS
Protein Properties Length: 177aa    MW: 20135.3 Da    PI: 9.3281
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000188.1_g00024.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF80.21.4e-25956148
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                             krien   rqvtf+kRr+g+lKKA+ELSvLCda+v v++fs +gkly+
  Itr_sc000188.1_g00024.1  9 KRIENPVHRQVTFCKRRAGLLKKAKELSVLCDADVGVLVFSAHGKLYD 56
                             79********************************************97 PP
2K-box432e-1587164986
                    K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkeke 86 
                               ++++    ++e++ Lk++i  Lq+ +R + G +++++s+ eL  Le+ Le  + ++ s K+  l++  ++lq+k +e
  Itr_sc000188.1_g00024.1  87 PKDKHVLDAKEEINMLKNRITILQEGLRFMYGGGIGTMSIHELDALEKYLEGWMHHVHSAKEGTLRATHKHLQEKVDE 164
                              5677888899****************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.165161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.7E-28179IPR002100Transcription factor, MADS-box
SMARTSM004322.0E-36160IPR002100Transcription factor, MADS-box
CDDcd002651.24E-39278No hitNo description
PRINTSPR004049.8E-27323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003196.9E-241055IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-273859IPR002100Transcription factor, MADS-box
PfamPF014861.9E-1291163IPR002487Transcription factor, K-box
PROSITE profilePS512978.09492177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot development
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: 177 aa     Download sequence    Send to blast
MGRGKIQLKR IENPVHRQVT FCKRRAGLLK KAKELSVLCD ADVGVLVFSA HGKLYDLATQ  60
GNMQGMIDKY VKFTGGAQVT EVTEQEPKDK HVLDAKEEIN MLKNRITILQ EGLRFMYGGG  120
IGTMSIHELD ALEKYLEGWM HHVHSAKEGT LRATHKHLQE KVDEEYRRMI TSIYGIN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A8e-17174173MEF2 CHIMERA
6byy_B8e-17174173MEF2 CHIMERA
6byy_C8e-17174173MEF2 CHIMERA
6byy_D8e-17174173MEF2 CHIMERA
6bz1_A8e-17174173MEF2 CHIMERA
6bz1_B8e-17174173MEF2 CHIMERA
6bz1_C8e-17174173MEF2 CHIMERA
6bz1_D8e-17174173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019176764.11e-105PREDICTED: agamous-like MADS-box protein AGL12 isoform X1
SwissprotQ388416e-60AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A2U8UAC94e-76A0A2U8UAC9_IPOBA; MBP9
TrEMBLA0A3Q7IV003e-76A0A3Q7IV00_SOLLC; Uncharacterized protein
STRINGSolyc11g032100.1.15e-77(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA98102024
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.13e-62AGAMOUS-like 12
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]