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 Csa27682s010.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family LBD
Protein Properties Length: 56aa    MW: 5569.28 Da    PI: 8.6797
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa27682s010.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF26053.38e-171656140
          DUF260  1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGas 40
                    +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGas
  Csa27682s010.1 16 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGAS 56
                    7***********************9989***********86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS50891151556IPR004883Lateral organ boundaries, LOB
PfamPF031953.6E-151656IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 56 aa     Download sequence    Send to blast
MSSSGNPSSS GGGGGPCGAC KFLRRKCVAG CIFAPYFDSE QGAAHFAAVH KVFGAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A6e-16956450LOB family transfactor Ramosa2.1
5ly0_B6e-16956450LOB family transfactor Ramosa2.1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator (PubMed:19717544, PubMed:22974309). Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19 (PubMed:17259263). Functions in the initiation and emergence of lateral roots, in conjunction with LBD18, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:22974309, ECO:0000269|PubMed:23749813, ECO:0000269|PubMed:26059335}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa27682s010.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:23749813}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4738522e-58AB473852.1 Arabidopsis thaliana ASL19 mRNA for ASYMMETRIC LEAVES2-like 19 protein, complete cds.
GenBankAF4322322e-58AF432232.1 Arabidopsis thaliana LOB DOMAIN 30 (LBD30) mRNA, complete cds.
GenBankAL1614712e-58AL161471.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 1.
GenBankBT0264072e-58BT026407.1 Arabidopsis thaliana At4g00220 mRNA, complete cds.
GenBankCP0026872e-58CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankDQ4467872e-58DQ446787.1 Arabidopsis thaliana clone pENTR221-At4g00220 LOB domain protein 30/lateral organ boundaries domain protein 30 (At4g00220) mRNA, complete cds.
GenBankDQ6531682e-58DQ653168.1 Arabidopsis thaliana clone 0000017076_0000011970 unknown mRNA.
GenBankF6N152e-58AF069299.1 Arabidopsis thaliana BAC F6N15.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010426737.19e-33PREDICTED: LOB domain-containing protein 30
SwissprotQ9SLB74e-22LBD16_ARATH; LOB domain-containing protein 16
TrEMBLA0A1U8FGA22e-23A0A1U8FGA2_CAPAN; LOB domain-containing protein 31
TrEMBLA0A2C9WPF03e-23A0A2C9WPF0_MANES; Uncharacterized protein
TrEMBLA0A2G2XNX82e-23A0A2G2XNX8_CAPBA; LOB domain-containing protein 31
TrEMBLA0A2G3AHC82e-23A0A2G3AHC8_CAPAN; LOB domain-containing protein 19
TrEMBLA0A2G3DDY22e-23A0A2G3DDY2_CAPCH; LOB domain-containing protein 31
STRINGXP_010426737.14e-32(Camelina sativa)
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
AT4G00220.11e-22LBD family protein
Publications ? help Back to Top
  1. Bargmann BO,Birnbaum KD,Brenner ED
    An undergraduate study of two transcription factors that promote lateral root formation.
    Biochem Mol Biol Educ, 2014 May-Jun. 42(3): p. 237-45
    [PMID:24615800]
  2. Cabrera J,Fenoll C,Escobar C
    Genes co-regulated with LBD16 in nematode feeding sites inferred from in silico analysis show similarities to regulatory circuits mediated by the auxin/cytokinin balance in Arabidopsis.
    Plant Signal Behav, 2015. 10(3): p. e990825
    [PMID:25664644]
  3. 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]
  4. Olmo R, et al.
    Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program?
    Front Plant Sci, 2017. 8: p. 875
    [PMID:28603536]
  5. 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]
  6. Jeon E, et al.
    LBD14/ASL17 Positively Regulates Lateral Root Formation and is Involved in ABA Response for Root Architecture in Arabidopsis.
    Plant Cell Physiol., 2017. 58(12): p. 2190-2201
    [PMID:29040694]
  7. 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]
  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]
  9. Liu J, et al.
    The WOX11-LBD16 Pathway Promotes Pluripotency Acquisition in Callus Cells During De Novo Shoot Regeneration in Tissue Culture.
    Plant Cell Physiol., 2018. 59(4): p. 734-743
    [PMID:29361138]
  10. 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]