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 Brast02G042800.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family LBD
Protein Properties Length: 251aa    MW: 25725.5 Da    PI: 6.2657
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast02G042800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260124.65e-399108199
              DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                         +C aCk+lrrkCa++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp  +r +a+ ++ yeA+ar+rdPvyG+v++i++lqqq+++l
  Brast02G042800.1.p   9 PCGACKFLRRKCARGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLAHLPLADRAEAAVTVSYEAQARLRDPVYGCVAHIFALQQQVMTL 99 
                         7*************************89*************************************************************** PP

              DUF260  91 kaelallke 99 
                         +a+la+ k+
  Brast02G042800.1.p 100 QAQLASFKH 108
                         ****99877 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.0928110IPR004883Lateral organ boundaries, LOB
PfamPF031951.9E-379107IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 251 aa     Download sequence    Send to blast
MSMTGFGSPC GACKFLRRKC ARGCVFAPYF CHEQGAAHFA AIHKVFGASN VSKLLAHLPL  60
ADRAEAAVTV SYEAQARLRD PVYGCVAHIF ALQQQVMTLQ AQLASFKHAA HAQHQQAASA  120
SMAPHEDASC YSYPPAWCNG AADVAAAAGG GFFAGGGNGV YGGGNGVAGA GHDDAVAMSS  180
ISAMLLAGSA AASDYYYAAL EQDDGHVVAA AESSAFGAEE SGGWRSSSST SGYQDCEDLQ  240
SVAYAYLNRS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A2e-3521034104LOB family transfactor Ramosa2.1
5ly0_B2e-3521034104LOB family transfactor Ramosa2.1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615, ECO:0000269|PubMed:21806801}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBrast02G042800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF0517321e-113EF051732.1 Zea mays rootless concerning crown and seminal lateral roots (rtcs) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003562079.11e-111LOB domain-containing protein 20
SwissprotQ5UG139e-90LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLI1H9P91e-110I1H9P9_BRADI; Uncharacterized protein
STRINGBRADI1G75110.11e-110(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25013893
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.12e-58lateral organ boundaries-domain 29
Publications ? help Back to Top
  1. Coudert Y,PĂ©rin C,Courtois B,Khong NG,Gantet P
    Genetic control of root development in rice, the model cereal.
    Trends Plant Sci., 2010. 15(4): p. 219-26
    [PMID:20153971]
  2. Kitomi Y, et al.
    The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling.
    Plant J., 2011. 67(3): p. 472-84
    [PMID:21481033]
  3. Coudert Y, et al.
    Transcript profiling of crown rootless1 mutant stem base reveals new elements associated with crown root development in rice.
    BMC Genomics, 2011. 12: p. 387
    [PMID:21806801]