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 PDK_30s797751g001
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Coryphoideae; Phoeniceae; Phoenix
Family LBD
Protein Properties Length: 236aa    MW: 25931.2 Da    PI: 6.7657
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PDK_30s797751g001genomePDKView 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.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 
                        +C aCk+lrrkC+++Cv+apyf++eq +++fa++hk+FGasnv+kll +lp ++r++a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+
  PDK_30s797751g001   7 PCGACKFLRRKCVRGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLMHLPVNDRSEAAITISYEAQARLQDPIYGCVAHIFALQQQVVNLQ 98 
                        7*************************89**************************************************************** PP

             DUF260  92 aelallkee 100
                        a+la+lk++
  PDK_30s797751g001  99 AQLASLKAQ 107
                        ****99987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.136108IPR004883Lateral 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: 236 aa     Download sequence    Send to blast
MAGFGSPCGA CKFLRRKCVR GCVFAPYFCH EQGAAHFAAI HKVFGASNVS KLLMHLPVND  60
RSEAAITISY EAQARLQDPI YGCVAHIFAL QQQVVNLQAQ LASLKAQAAQ GLGNGSNATP  120
TPQEDKLYQK FPPYQQDGQG FFLSGDGRIP SFLPNHSMNT KSMNYCNNEL LESNCIQSSQ  180
DCNPHSVLNI ENMFFGIEDN SSCAVASLDM QPRTWRSAYH EMEDLQSVTF AHLNGS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A4e-3531017104LOB family transfactor Ramosa2.1
5ly0_B4e-3531017104LOB 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}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008794315.11e-178LOB domain-containing protein CRL1-like
SwissprotQ5UG132e-71LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A2H3Y7621e-177A0A2H3Y762_PHODC; LOB domain-containing protein CRL1-like
STRINGXP_008794315.11e-178(Phoenix dactylifera)
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
AT2G42440.13e-52LBD family protein
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]