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 Cotton_A_23990_BGI-A2_v1.0
Organism
Gossypium arboreum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family LBD
Protein Properties Length: 229aa    MW: 25246.2 Da    PI: 7.0822
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_23990_BGI-A2_v1.0genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260123.41.2e-3871071100
                      DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilk 82 
                                 +C aCk+lrrkC++ C++apyf++eq + +fa++hk+FGasnv+kll++lp ++r++a+ ++ yeA+ar++dP+yG+v++i++
  Cotton_A_23990_BGI-A2_v1.0   7 PCGACKFLRRKCVRWCIFAPYFCHEQgATHFAAIHKVFGASNVSKLLAHLPLSDRSEAALTISYEAQARLHDPIYGCVSHIFA 89 
                                 7*************************89******************************************************* PP

                      DUF260  83 lqqqleqlkaelallkee 100
                                 lqqq+ +l+a+la+lk++
  Cotton_A_23990_BGI-A2_v1.0  90 LQQQVVNLQAQLASLKAQ 107
                                 *************99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.1496108IPR004883Lateral organ boundaries, LOB
PfamPF031951.5E-367105IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 229 aa     Download sequence    Send to blast
MTGCGSPCGA CKFLRRKCVR WCIFAPYFCH EQGATHFAAI HKVFGASNVS KLLAHLPLSD  60
RSEAALTISY EAQARLHDPI YGCVSHIFAL QQQVVNLQAQ LASLKAQAAQ SIANGSVTAN  120
PNDKYHGKLH NLQDVQTWFH PNDSSMAPNF NPNLSTSSYG LSDRTNSLGN LENSVISSGS  180
DDYVSFNTKF EDAPRSMSPF DMQTHNRQWT NFQDVDDLQA MALGYAQHS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A3e-3431017104LOB family transfactor Ramosa2.1
5ly0_B3e-3431017104LOB 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_017625011.11e-173PREDICTED: LOB domain-containing protein 29-like
SwissprotQ5UG133e-69LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A2P5WX751e-170A0A2P5WX75_GOSBA; Uncharacterized protein
STRINGGorai.004G073300.11e-168(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM10828359
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G42440.16e-53LBD family protein
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]