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 RrC3356_p2
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family LBD
Protein Properties Length: 224aa    MW: 23679.9 Da    PI: 7.1758
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3356_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260132.41.8e-41151151100
      DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallk 98 
                 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll+++pe++r da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el++++
  RrC3356_p2  15 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLQHVPEHKRADAVVSICFEAQARLRDPIYGCVSHIVSLQQQVVSLQTELSYVQ 113
                 7***********************9989*********************************************************************99 PP

      DUF260  99 ee 100
                 ++
  RrC3356_p2 114 AH 115
                 86 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089123.6514116IPR004883Lateral organ boundaries, LOB
PfamPF031955.2E-4015113IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010089Biological Processxylem development
GO:0010199Biological Processorgan boundary specification between lateral organs and the meristem
Sequence ? help Back to Top
Protein Sequence    Length: 224 aa     Download sequence    Send to blast
MSSSGSPSSS CGGGPCGACK FLRRKCVAGC IFAPYFDSEQ GAAHFAAVHK VFGASNVSKL  60
LQHVPEHKRA DAVVSICFEA QARLRDPIYG CVSHIVSLQQ QVVSLQTELS YVQAHLATLE  120
LPQPPPAPVT SSGSPPPLSI SDLPTITPSL YELSPIFEPM SSTWTMQQQP RPFDHIFGVP  180
SSSTIGGSGE LQALARNFLH GGQIPADQPP QGTCGSAPTV VKRE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A3e-3851161111LOB family transfactor Ramosa2.1
5ly0_B3e-3851161111LOB family transfactor Ramosa2.1
Search in ModeBase
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. {ECO:0000269|PubMed:19088331}.
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_018454999.11e-162PREDICTED: LOB domain-containing protein 30
SwissprotO813231e-115LBD30_ARATH; LOB domain-containing protein 30
TrEMBLA0A397XZA81e-142A0A397XZA8_BRACM; Uncharacterized protein
TrEMBLM4F8B11e-142M4F8B1_BRARP; Uncharacterized protein
STRINGBra037323.1-P1e-143(Brassica rapa)
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-102LBD family protein
Publications ? help Back to Top
  1. Rast-Somssich MI, et al.
    The Arabidopsis JAGGED LATERAL ORGANS (JLO) gene sensitizes plants to auxin.
    J. Exp. Bot., 2017. 68(11): p. 2741-2755
    [PMID:28472464]
  2. Liu C,Yu H,Li L
    SUMO modification of LBD30 by SIZ1 regulates secondary cell wall formation in Arabidopsis thaliana.
    PLoS Genet., 2019. 15(1): p. e1007928
    [PMID:30657769]