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 maker-scaffold03453-snap-gene-0.17-mRNA-1
Organism
Castanea mollissima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family LBD
Protein Properties Length: 258aa    MW: 28543.1 Da    PI: 7.4968
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
maker-scaffold03453-snap-gene-0.17-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260126.31.4e-3933132199
                                     DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAea 67 
                                                +C aCk+lrrkC+++Cv+apyf++eq + +fa++hk+FGasnv+kll++lp ++r++a+ ++ yeA+a
  maker-scaffold03453-snap-gene-0.17-mRNA-1  33 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLAHLPVSDRSEAAVTISYEAQA 100
                                                7*************************89**************************************** PP

                                     DUF260  68 rardPvyGavgvilklqqqleqlkaelallke 99 
                                                r++dP+yG+v++i++lqqq+ +l+a+la+lke
  maker-scaffold03453-snap-gene-0.17-mRNA-1 101 RLQDPIYGCVSHIFALQQQVVNLQAQLASLKE 132
                                                ***************************99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.11132134IPR004883Lateral organ boundaries, LOB
PfamPF031956.0E-3833131IPR004883Lateral 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: 258 aa     Download sequence    Send to blast
MVIMPGTKLR NPTSNIKTPK TQKIIKMTGS GSPCGACKFL RRKCVRGCVF APYFCHEQGA  60
THFAAIHKVF GASNVSKLLA HLPVSDRSEA AVTISYEAQA RLQDPIYGCV SHIFALQQQV  120
VNLQAQLASL KELQAAQSFL NGSASANPSE KYYAKPSHPQ DVQSWFQSEI SNMMQQFNPN  180
INNNASTMPY QENMSMSNSM GNYGNSNIPE EINASYGCSY EEASHSMSSL DMNIYDRQWS  240
LQETDDLQSA AFGYIQHS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A2e-36291487127LOB family transfactor Ramosa2.1
5ly0_B2e-36291487127LOB 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}.
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_023886753.11e-172LOB domain-containing protein 29-like
SwissprotQ5UG134e-67LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A2N9HGQ91e-145A0A2N9HGQ9_FAGSY; Uncharacterized protein
STRINGPOPTR_0002s04200.11e-118(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF35713366
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G42440.17e-57LBD 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]