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 Gh_Sca082187G01
Organism
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: 102aa    MW: 11105.9 Da    PI: 8.5026
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_Sca082187G01genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260120.11.2e-37795188
           DUF260  1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqle 88
                     +C aCk+lrr+C+k+Cv+apyf +eq + +fa++hk+FGasnv+kll++lp +er +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ 
  Gh_Sca082187G01  7 PCGACKFLRRRCVKGCVFAPYFSHEQgATHFAAIHKVFGASNVSKLLTHLPVNERCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVL 95
                     7*************************89***********************************************************85 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.0726102IPR004883Lateral organ boundaries, LOB
PfamPF031952.3E-36794IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 102 aa     Download sequence    Send to blast
MTGAGSPCGA CKFLRRRCVK GCVFAPYFSH EQGATHFAAI HKVFGASNVS KLLTHLPVNE  60
RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVLTSTLC FV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A9e-37394797LOB family transfactor Ramosa2.1
5ly0_B9e-37394797LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in unelongating basal internodes, at the base of shoot in parenchyma cells adjacent to the peripheral vascular cylinder of the stem, and root pericycle cells (PubMed:15829602). Expressed in lateral and adventitious root primordia, tiller primordia, vascular tissues, scutellum, and young pedicels (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}.
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_016728827.12e-65PREDICTED: LOB domain-containing protein 29-like
RefseqXP_017624613.12e-65PREDICTED: LOB domain-containing protein 29-like
SwissprotQ5UG134e-57LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A1U8MPT25e-64A0A1U8MPT2_GOSHI; LOB domain-containing protein 29-like
TrEMBLA0A2P5S1685e-64A0A2P5S168_GOSBA; Uncharacterized protein
TrEMBLA0A2P5XCI55e-64A0A2P5XCI5_GOSBA; Uncharacterized protein
STRINGGorai.004G220000.17e-64(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
AT2G42440.12e-58LBD 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]