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 OB08G30680.1
Common NameLOC102702873
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family LBD
Protein Properties Length: 215aa    MW: 23506.3 Da    PI: 5.2464
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB08G30680.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260122.22.8e-3871071100
        DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelal 96 
                   +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasn +kll +lp ++r +a+ ++ yeA+ar+rdP+yG+v++i++lqqq+ +l+a+l++
  OB08G30680.1   7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKLLMHLPVSDRCEAAVTMSYEAQARLRDPIYGCVSHIFSLQQQVVSLQAQLES 103
                   7*************************89********************************************************************9 PP

        DUF260  97 lkee 100
                   lk++
  OB08G30680.1 104 LKAQ 107
                   9987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.7336108IPR004883Lateral organ boundaries, LOB
PfamPF031952.2E-367105IPR004883Lateral 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
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KLLMHLPVSD  60
RCEAAVTMSY EAQARLRDPI YGCVSHIFSL QQQVVSLQAQ LESLKAQATE GYGDGYSISS  120
PRKDSCGNMF TNLLQDEQLF VNPAMASNSS VKNEKESYFA NEQLAPVSGE YSQGFEAELC  180
MSEYSNSNPW CSVQGNEYDG TEDLHSVAFA YLNQA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A9e-3531037106LOB family transfactor Ramosa2.1
5ly0_B9e-3531037106LOB 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
PlantRegMapOB08G30680.1
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
GenBankAP0045871e-122AP004587.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0543D10.
GenBankAP0149641e-122AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
GenBankCP0126161e-122CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006659712.11e-161PREDICTED: LOB domain-containing protein 17-like
SwissprotQ5UG133e-66LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLJ3MVD71e-159J3MVD7_ORYBR; Uncharacterized protein
STRINGOB08G30680.11e-160(Oryza brachyantha)
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-55lateral 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]