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 Cc01_g18510
Common NameGSCOC_T00016197001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family LBD
Protein Properties Length: 235aa    MW: 25831.9 Da    PI: 5.96
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc01_g18510genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260125.13.4e-3971071100
       DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelall 97 
                  +C aCk+lrrkC+++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+la l
  Cc01_g18510   7 PCGACKFLRRKCVRGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLAHLPVSDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVVNLQAQLAFL 104
                  7*************************89********************************************************************99 PP

       DUF260  98 kee 100
                  +e+
  Cc01_g18510 105 REQ 107
                  987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.0646108IPR004883Lateral organ boundaries, LOB
PfamPF031952.9E-377105IPR004883Lateral 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: 235 aa     Download sequence    Send to blast
MTGSGSPCGA CKFLRRKCVR GCVFAPYFCH EQGAAHFAAI HKVFGASNVS KLLAHLPVSD  60
RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVVNLQAQ LAFLREQAAQ CLANGYSNTA  120
ANPNEIKSEG KCLSYSPDVQ SWFQPENSGT IPHFDSNFVP KNGEMSHFQR GIMSQTSLGS  180
YEYPVNLPGE NISTGSQSMD SLDHMQTPED EQWGFPDHDM EDLQSVAFRY IQHS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-3431017104LOB family transfactor Ramosa2.1
5ly0_B1e-3431017104LOB family transfactor Ramosa2.1
Search in ModeBase
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}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263}.
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_027110336.11e-177LOB domain-containing protein 29-like
SwissprotQ9M2J73e-70LBD29_ARATH; LOB domain-containing protein 29
TrEMBLA0A068U5B41e-176A0A068U5B4_COFCA; Uncharacterized protein
STRINGXP_008235796.11e-100(Prunus mume)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA84462230
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.11e-59lateral 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]