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 Pavir.6KG414300.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family LBD
Protein Properties Length: 215aa    MW: 23697.5 Da    PI: 6.133
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG414300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260119.71.7e-3771071100
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 
                          +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasn +kll +lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +
  Pavir.6KG414300.1.p   7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKLLIHLPASDRCEAAVTMSYEAQARLQDPIYGCVAHIFSLQQQVVS 96 
                          7*************************89************************************************************** PP

               DUF260  90 lkaelallkee 100
                          l+ael++ k++
  Pavir.6KG414300.1.p  97 LQAELESCKSQ 107
                          *****998876 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.6956108IPR004883Lateral organ boundaries, LOB
PfamPF031952.1E-357105IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 215 aa     Download sequence    Send to blast
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KLLIHLPASD  60
RCEAAVTMSY EAQARLQDPI YGCVAHIFSL QQQVVSLQAE LESCKSQATQ GYKDGSLTSN  120
PQKESCQRLT PYMQDGQLFF HQTIASNSSE KSESQLYFAN DCFNSESTQY SEGYEPDLCM  180
PDYNNSNPSC NMQRIGYHNM DNLQSVAFAY LNEA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A2e-3531217123LOB family transfactor Ramosa2.1
5ly0_B2e-3531217123LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots. {ECO:0000269|PubMed:12068116}.
Functional Description ? help Back to Top
Source Description
UniProtInvolved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269|PubMed:17259263}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG414300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025820157.11e-140LOB domain-containing protein 29-like
SwissprotQ9M2J76e-65LBD29_ARATH; LOB domain-containing protein 29
TrEMBLA0A3L6PLU01e-144A0A3L6PLU0_PANMI; LOB domain-containing protein 29-like
STRINGPavir.Fa00011.1.p1e-158(Panicum virgatum)
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
AT3G58190.12e-67lateral organ boundaries-domain 29
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]
  4. 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]
  5. 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]