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 Bradi3g12550.1.p
Common NameBRADI_3g12550, LOC100839530
Organism
Brachypodium distachyon
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: 215aa    MW: 23669.4 Da    PI: 6.0026
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g12550.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF2601223.2e-3871071100
            DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 
                       +C aCk+lrrkC+++Cv+apyf +eq +++fa++hk+FGasn +k+l++lp ++r +a+ ++ yeA+ar+rdP+yG+v++i++lqqq+ +l+a
  Bradi3g12550.1.p   7 PCGACKFLRRKCVNGCVFAPYFSHEQgAAHFAAIHKVFGASNASKILTHLPASDRCEAAVTMSYEAQARLRDPIYGCVAHIFSLQQQVVNLQA 99 
                       7*************************89***************************************************************** PP

            DUF260  93 elallkee 100
                       +l++ +++
  Bradi3g12550.1.p 100 QLESFRTQ 107
                       **988766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.2626108IPR004883Lateral organ boundaries, LOB
PfamPF031956.3E-377104IPR004883Lateral 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: 215 aa     Download sequence    Send to blast
MTGLSSPCGA CKFLRRKCVN GCVFAPYFSH EQGAAHFAAI HKVFGASNAS KILTHLPASD  60
RCEAAVTMSY EAQARLRDPI YGCVAHIFSL QQQVVNLQAQ LESFRTQAIQ GYGDGSSIST  120
PQKDDCGNMF ARYLQDEQQL LFHPTMPSSS SIKSEDQLYS GNDHFTSTST QSAQHYEPDL  180
CMPDYSNTNP YCTMEGYHDM DDLQSVAFAY LNKA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A2e-3531207124LOB family transfactor Ramosa2.1
5ly0_B2e-3531207124LOB 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
PlantRegMapBradi3g12550.1.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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003573219.11e-161LOB domain-containing protein 29
SwissprotQ5UG134e-63LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLI1I0281e-160I1I028_BRADI; Uncharacterized protein
STRINGBRADI3G12550.11e-160(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25013893
Representative plantOGRP40515100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.12e-54lateral organ boundaries-domain 29
Publications ? help Back to Top
  1. Coudert Y,Périn 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]