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 ORGLA08G0192400.1
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: 23239.2 Da    PI: 6.2822
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA08G0192400.1genomeAGIView 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.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 
                        +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasn +k+l +lp ++r +a+ ++ yeA+ar+rdP+yG+v++i++lqqq+ +l+
  ORGLA08G0192400.1   7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKILMHLPVSDRCEAAVTMSYEAQARLRDPIYGCVAHIFSLQQQVVSLQ 98 
                        7*************************89**************************************************************** PP

             DUF260  92 aelallkee 100
                        a+l++lk++
  ORGLA08G0192400.1  99 AQLESLKAQ 107
                        ****99987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.6956108IPR004883Lateral organ boundaries, LOB
PfamPF031952.9E-367105IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 215 aa     Download sequence    Send to blast
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KILMHLPVSD  60
RCEAAVTMSY EAQARLRDPI YGCVAHIFSL QQQVVSLQAQ LESLKAQATQ GYGDGCSISS  120
PQNDSCGNML TSIVQDEQQF VGPTMASNSS VKNENHSYIA NGHLAPMSAQ SSQGFEAELC  180
MAEYSNTNPC CSVQGNWYHD MEDLQSVAFA YLNQA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-3431037106LOB family transfactor Ramosa2.1
5ly0_B1e-3431037106LOB 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
PlantRegMapORGLA08G0192400.1
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
GenBankAP0045870.0AP004587.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0543D10.
GenBankAP0149640.0AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
GenBankCP0126160.0CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015648252.11e-161LOB domain-containing protein CRL1-like
SwissprotQ5UG131e-66LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A0D3H3A51e-159A0A0D3H3A5_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0AZ211e-159A0A0E0AZ21_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0IGE81e-159A0A0E0IGE8_ORYNI; Uncharacterized protein
TrEMBLA0A0E0QMG81e-159A0A0E0QMG8_ORYRU; Uncharacterized protein
TrEMBLA2YY711e-159A2YY71_ORYSI; Uncharacterized protein
TrEMBLI1QKH31e-159I1QKH3_ORYGL; Uncharacterized protein
TrEMBLQ6ZBW81e-159Q6ZBW8_ORYSJ; Os08g0563400 protein
STRINGOGLUM08G25340.11e-160(Oryza glumipatula)
STRINGORUFI08G26340.11e-160(Oryza rufipogon)
STRINGOS08T0563400-001e-160(Oryza sativa)
STRINGONIVA09G01330.11e-160(Oryza nivara)
STRINGORGLA08G0192400.11e-160(Oryza glaberrima)
STRINGOBART08G23860.11e-160(Oryza barthii)
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-54lateral 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]