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 cra_locus_105375_iso_1
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family LBD
Protein Properties Length: 123aa    MW: 12324.8 Da    PI: 8.6165
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_105375_iso_1genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF2601278.9e-4029123194
                                DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardP 72 
                                           +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+k+l ++p ++r da+ +++yeA+ar+rdP
  cra_locus_105375_iso_1_len_366_ver_3  29 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKMLLHIPIHKRLDAVVTICYEAQARLRDP 101
                                           7***********************9989********************************************* PP

                                DUF260  73 vyGavgvilklqqqleqlkael 94 
                                           vyG+v++i++lqqq+ +l+ael
  cra_locus_105375_iso_1_len_366_ver_3 102 VYGCVAHIFALQQQVVNLQAEL 123
                                           *******************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.67828123IPR004883Lateral organ boundaries, LOB
PfamPF031954.2E-3929123IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010089Biological Processxylem development
GO:0010311Biological Processlateral root formation
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 123 aa     Download sequence    Send to blast
XAGSGGGGGG GGGSSGGSSS GGGGGGGGPC GACKFLRRKC VAGCIFAPYF DSEQGAAHFA  60
AVHKVFGASN VSKMLLHIPI HKRLDAVVTI CYEAQARLRD PVYGCVAHIF ALQQQVVNLQ  120
AEL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A3e-40251237104LOB family transfactor Ramosa2.1
5ly0_B3e-40251237104LOB family transfactor Ramosa2.1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1313SGGGGGGGGGS
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes (PubMed:19088331). Functions in the initiation and emergence of lateral roots, in conjunction with LBD16, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Transcriptional activator that directly regulates EXPA14, a gene encoding a cell wall-loosening factor that promotes lateral root emergence. Activates EXPA14 by directly binding to a specific region of its promoter (PubMed:22974309). Transcriptional activator that directly regulates EXPA17, a gene encoding a cell wall-loosening factor that promotes lateral root emergence (PubMed:23872272). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269|PubMed:19088331, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:22974309, ECO:0000269|PubMed:23749813, ECO:0000269|PubMed:23872272, ECO:0000269|PubMed:26059335}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00314DAPTransfer from AT2G45420Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:23749813}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009400358.18e-65PREDICTED: LOB domain-containing protein 18-like
RefseqXP_009795320.19e-65PREDICTED: LOB domain-containing protein 30
RefseqXP_016488575.19e-65PREDICTED: LOB domain-containing protein 30-like
SwissprotO221311e-57LBD18_ARATH; LOB domain-containing protein 18
TrEMBLA0A2Z7APU32e-63A0A2Z7APU3_9LAMI; LOB domain-containing protein 18
STRINGXP_009795320.13e-64(Nicotiana sylvestris)
STRINGGSMUA_Achr5P11330_0013e-64(Musa acuminata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4324669
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Lee HW, et al.
    Dimerization in LBD16 and LBD18 Transcription Factors Is Critical for Lateral Root Formation.
    Plant Physiol., 2017. 174(1): p. 301-311
    [PMID:28336771]
  3. Pandey SK,Kim J
    Coiled-coil motif in LBD16 and LBD18 transcription factors are critical for dimerization and biological function in arabidopsis.
    Plant Signal Behav, 2018. 13(1): p. e1411450
    [PMID:29227192]
  4. Pandey SK, et al.
    LBD18 uses a dual mode of a positive feedback loop to regulate ARF expression and transcriptional activity in Arabidopsis.
    Plant J., 2018. 95(2): p. 233-251
    [PMID:29681137]
  5. Lee HW, et al.
    LBD16 and LBD18 acting downstream of ARF7 and ARF19 are involved in adventitious root formation in Arabidopsis.
    BMC Plant Biol., 2019. 19(1): p. 46
    [PMID:30704405]