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 Seita.9G282200.1.p
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family LBD
Protein Properties Length: 263aa    MW: 27185.7 Da    PI: 6.8581
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.9G282200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260128.52.9e-40341341100
              DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                         +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p+++r da+ +++yeA+ar+rdP+yG+v++i++lqqq+ +l
  Seita.9G282200.1.p  34 PCGACKFLRRKCVSGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLQIPPHKRLDAVVTVCYEAQARLRDPIYGCVSHIFALQQQVVNL 124
                         7***********************9989*************************************************************** PP

              DUF260  91 kaelallkee 100
                         +ael +l+ +
  Seita.9G282200.1.p 125 QAELTYLQGH 134
                         ****998865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089123.37633135IPR004883Lateral organ boundaries, LOB
PfamPF031951.5E-3934132IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 263 aa     Download sequence    Send to blast
MSSSVAGASA GGGAGGLGGG GGAGAGAGIG GGGPCGACKF LRRKCVSGCI FAPYFDSEQG  60
AAHFAAVHKV FGASNVSKLL LQIPPHKRLD AVVTVCYEAQ ARLRDPIYGC VSHIFALQQQ  120
VVNLQAELTY LQGHLTTMEL PTPPPFAPQP QPPMPTNAAF SVSNLPLSSS VPATVDLSTL  180
LDPHNQSQQW AFQFQQQQVL QQQQQLLQQQ QYMQMGEGSS RVAGGSSTAD GGDLQALARE  240
LLDRHGMVAA GSPPEPPTPA IQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A4e-39301287104LOB family transfactor Ramosa2.1
5ly0_B4e-39301287104LOB family transfactor Ramosa2.1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes (PubMed:19088331). Functions in the initiation and emergence of lateral roots, in conjunction with LBD16, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Transcriptional activator that directly regulates EXPA14, a gene encoding a cell wall-loosening factor that promotes lateral root emergence. Activates EXPA14 by directly binding to a specific region of its promoter (PubMed:22974309). Transcriptional activator that directly regulates EXPA17, a gene encoding a cell wall-loosening factor that promotes lateral root emergence (PubMed:23872272). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269|PubMed:19088331, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:22974309, ECO:0000269|PubMed:23749813, ECO:0000269|PubMed:23872272, ECO:0000269|PubMed:26059335}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.9G282200.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:23749813}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0614311e-124BT061431.1 Zea mays full-length cDNA clone ZM_BFb0145J09 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004986691.10.0LOB domain-containing protein 18-like
SwissprotO221316e-70LBD18_ARATH; LOB domain-containing protein 18
TrEMBLA0A368SLP70.0A0A368SLP7_SETIT; Uncharacterized protein
STRINGPavir.Ib02517.1.p1e-97(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP33463782
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45420.15e-62LOB domain-containing protein 18
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Lee HW, et al.
    Dimerization in LBD16 and LBD18 Transcription Factors Is Critical for Lateral Root Formation.
    Plant Physiol., 2017. 174(1): p. 301-311
    [PMID:28336771]
  3. Pandey SK,Kim J
    Coiled-coil motif in LBD16 and LBD18 transcription factors are critical for dimerization and biological function in arabidopsis.
    Plant Signal Behav, 2018. 13(1): p. e1411450
    [PMID:29227192]
  4. Pandey SK, et al.
    LBD18 uses a dual mode of a positive feedback loop to regulate ARF expression and transcriptional activity in Arabidopsis.
    Plant J., 2018. 95(2): p. 233-251
    [PMID:29681137]
  5. Lee HW, et al.
    LBD16 and LBD18 acting downstream of ARF7 and ARF19 are involved in adventitious root formation in Arabidopsis.
    BMC Plant Biol., 2019. 19(1): p. 46
    [PMID:30704405]