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 Oropetium_20150105_14451A
Organism
Oropetium thomaeum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium
Family LBD
Protein Properties Length: 169aa    MW: 18403.8 Da    PI: 6.2143
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_14451AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260121.83.7e-3881081100
                     DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilkl 83 
                                +C aCk+lrrkC+k+Cv+apyf++eq +++fa++h++FGasn +kll +lp ++r +a+ ++ yeA+ar++dP+yG+v++i++l
  Oropetium_20150105_14451A   8 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHRVFGASNASKLLMHLPISDRCEAAVTMSYEAQARLQDPIYGCVAHIFSL 91 
                                7*************************89******************************************************** PP

                     DUF260  84 qqqleqlkaelallkee 100
                                qqq+ +l+a+l++lk+e
  Oropetium_20150105_14451A  92 QQQVVRLQAQLDSLKAE 108
                                ***********999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.6587109IPR004883Lateral organ boundaries, LOB
PfamPF031953.5E-368106IPR004883Lateral 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: 169 aa     Download sequence    Send to blast
MMTGFGSPCG ACKFLRRKCV KGCVFAPYFC HEQGAAHFAA IHRVFGASNA SKLLMHLPIS  60
DRCEAAVTMS YEAQARLQDP IYGCVAHIFS LQQQVVRLQA QLDSLKAEAT LGYGDGSLTS  120
NPQKENCYEA DLCMPDYNSS NTSWTEQGSG YHDMDDLQSV ALAYLNQA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-3741227123LOB family transfactor Ramosa2.1
5ly0_B1e-3741227123LOB 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
PlantRegMapOropetium_20150105_14451A
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN6726701e-111JN672670.1 Eragrostis tef bio-material GRIN PI524434 clone Tefdw3b, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020402252.18e-98LOB domain-containing protein 29
SwissprotQ5UG132e-65LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A317Y2S63e-97A0A317Y2S6_MAIZE; LOB domain-containing protein 29
STRINGSi015156m5e-97(Setaria italica)
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
AT3G58190.14e-58lateral 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]