PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC79_p5
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family LBD
Protein Properties Length: 219aa    MW: 23967.5 Da    PI: 6.83
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC79_p5genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260124.36e-39111111100
    DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100
               +C aCk+lrrkCak+Cv+apyf++eq +++fa++hk+FGasn +kll++lp+++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+l+ lk++
  RrC79_p5  11 PCGACKFLRRKCAKGCVFAPYFCHEQgASHFAAIHKVFGASNASKLLSQLPTSDRCEAAITISYEAQARLQDPIYGCVSHIFALQQQVVNLQAQLEILKQQ 111
               7*************************89*********************************************************************9997 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.18610112IPR004883Lateral organ boundaries, LOB
PfamPF031951.2E-3611109IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010311Biological Processlateral root formation
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 219 aa     Download sequence    Send to blast
MSSSSSSSGS PCGACKFLRR KCAKGCVFAP YFCHEQGASH FAAIHKVFGA SNASKLLSQL  60
PTSDRCEAAI TISYEAQARL QDPIYGCVSH IFALQQQVVN LQAQLEILKQ QAAQSMMFAD  120
SPSSGNPSSF YGDTTKTTSY HHDHQNIYHH RDQTHLVNQI GSLGTGQHGD ATANSYLSEN  180
SSGFGEFSIY PELEQHLNTF NQDHLKELQS ANFGYISFS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A7e-3621062105LOB family transfactor Ramosa2.1
5ly0_B7e-3621062105LOB family transfactor Ramosa2.1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269|PubMed:17259263}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4738490.0AB473849.1 Arabidopsis thaliana ASL16 mRNA for ASYMMETRIC LEAVES2-like 16 protein, complete cds.
GenBankAF4478930.0AF447893.1 Arabidopsis thaliana LOB DOMAIN 29 (LBD29) mRNA, complete cds.
GenBankBT0252820.0BT025282.1 Arabidopsis thaliana At3g58190 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013603683.11e-148PREDICTED: LOB domain-containing protein 29
RefseqXP_013603684.11e-148PREDICTED: LOB domain-containing protein 29
RefseqXP_013659892.11e-148LOB domain-containing protein 29
SwissprotQ9M2J71e-135LBD29_ARATH; LOB domain-containing protein 29
TrEMBLA0A0D3DU531e-147A0A0D3DU53_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FIJ01e-146A0A3P6FIJ0_BRAOL; Uncharacterized protein
STRINGBo8g092560.11e-147(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM10828359
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.11e-126lateral organ boundaries-domain 29
Publications ? help Back to Top
  1. Gupta A,Singh M,Laxmi A
    Interaction between glucose and brassinosteroid during the regulation of lateral root development in Arabidopsis.
    Plant Physiol., 2015. 168(1): p. 307-20
    [PMID:25810094]
  2. Porco S, et al.
    Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3.
    Development, 2016. 143(18): p. 3340-9
    [PMID:27578783]
  3. Lee K,Seo PJ
    High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis.
    Planta, 2017. 246(4): p. 797-802
    [PMID:28766014]
  4. Xu C,Cao H,Xu E,Zhang S,Hu Y
    Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation.
    Plant Cell Physiol., 2018. 59(4): p. 744-755
    [PMID:29121271]
  5. Xu C, et al.
    Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration.
    Nat Plants, 2018. 4(2): p. 108-115
    [PMID:29358751]