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 Spipo22G0039400
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family LBD
Protein Properties Length: 217aa    MW: 23795.8 Da    PI: 5.5745
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo22G0039400genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260128.82.4e-4091091100
           DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkae 93 
                      +C aCk+lrrkCa++Cv+apyf  +q + +fa+vhk+FGasnv+kll++lp ++r++a+ ++ yeA+ar+rdPvyG+v++i++lqqq+++l++e
  Spipo22G0039400   9 SCGACKFLRRKCAEGCVFAPYFSYDQgAIHFAAVHKVFGASNVSKLLSHLPVQHRSEAAVTISYEAQARMRDPVYGCVSHIFALQQQVASLQEE 102
                      6*************************889***************************************************************** PP

           DUF260  94 lallkee 100
                      +++l ++
  Spipo22G0039400 103 IESLTKQ 109
                      *998877 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089123.2358110IPR004883Lateral organ boundaries, LOB
PfamPF031951.4E-389106IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 217 aa     Download sequence    Send to blast
MNMAGLASSC GACKFLRRKC AEGCVFAPYF SYDQGAIHFA AVHKVFGASN VSKLLSHLPV  60
QHRSEAAVTI SYEAQARMRD PVYGCVSHIF ALQQQVASLQ EEIESLTKQL AQTTGDDRNP  120
SPLASDSIWD CFQVCMQVDE FSNQHTGNAS TLSSFSGESK VQGLPAVYKD AIERLEYTLF  180
SDFTNEPSSW EDLSVDMLGD FASCKKGLFT RIVFCK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A9e-3651107111LOB family transfactor Ramosa2.1
5ly0_B9e-3651107111LOB 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}.
UniProtInvolved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269|PubMed:17259263}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263}.
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_008372823.15e-61LOB domain-containing protein 33
SwissprotQ5UG134e-54LBD_ORYSJ; LOB domain-containing protein CRL1
SwissprotQ9M2J71e-54LBD29_ARATH; LOB domain-containing protein 29
TrEMBLA0A0K9NKR49e-60A0A0K9NKR4_ZOSMR; Putative LOB domain-containing protein
TrEMBLA0A498JF691e-59A0A498JF69_MALDO; Uncharacterized protein
STRINGXP_008372823.12e-60(Malus domestica)
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
AT3G58190.15e-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]
  4. Gupta A,Singh M,Laxmi A
    Interaction between glucose and brassinosteroid during the regulation of lateral root development in Arabidopsis.
    Plant Physiol., 2015. 168(1): p. 307-20
    [PMID:25810094]
  5. Porco S, et al.
    Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3.
    Development, 2016. 143(18): p. 3340-9
    [PMID:27578783]
  6. Lee K,Seo PJ
    High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis.
    Planta, 2017. 246(4): p. 797-802
    [PMID:28766014]
  7. Xu C,Cao H,Xu E,Zhang S,Hu Y
    Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation.
    Plant Cell Physiol., 2018. 59(4): p. 744-755
    [PMID:29121271]
  8. Xu C, et al.
    Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration.
    Nat Plants, 2018. 4(2): p. 108-115
    [PMID:29358751]