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 PH01000788G0760
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys
Family LBD
Protein Properties Length: 227aa    MW: 24933.9 Da    PI: 5.2407
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PH01000788G0760genomeICBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260125.72.3e-3971071100
           DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkae 93 
                      +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasnv+kll +lp ++r +a+ ++ yeA+ar+rdP+yG+v++i++lqqq+ +l+a+
  PH01000788G0760   7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLMHLPVNDRCEAAVTISYEAQARLRDPIYGCVSHIFALQQQVVNLQAQ 100
                      7*************************89****************************************************************** PP

           DUF260  94 lallkee 100
                      l++lk++
  PH01000788G0760 101 LESLKAQ 107
                      **99987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.1396108IPR004883Lateral organ boundaries, LOB
PfamPF031951.4E-377105IPR004883Lateral 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: 227 aa     Download sequence    Send to blast
MTGFGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNVS KLLMHLPVND  60
RCEAAVTISY EAQARLRDPI YGCVSHIFAL QQQVVNLQAQ LESLKAQASQ GYTNGSSISN  120
PQENNFKTKF MACQQGEART PQPEESCPSV KNESQCYFGD DLMACTSMQS SQGYNSSVYT  180
PDYTASFNDE SNPSCTMFSL DMQEDVQKNG YFDTEDLQSV AFAYLN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-3531037106LOB family transfactor Ramosa2.1
5ly0_B1e-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
PlantRegMapPH01000788G0760
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_020163832.11e-107LOB domain-containing protein 17-like
SwissprotQ5UG132e-72LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A3L6T7F71e-116A0A3L6T7F7_PANMI; Uncharacterized protein
STRINGPavir.J03376.1.p1e-113(Panicum virgatum)
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
AT3G58190.13e-57lateral 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]