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 490546
Common NameARALYDRAFT_490546
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family LBD
Protein Properties Length: 227aa    MW: 23782.9 Da    PI: 7.2029
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
490546genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260133.11.1e-41151151100
  DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100
             +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll+++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el++l+++
  490546  15 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLQHVPEHKRPDAVVSICFEAQARLRDPIYGCVSHIVSLQQQVVSLQTELSYLQAH 115
             7***********************9989********************************************************************99986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089123.8214116IPR004883Lateral organ boundaries, LOB
PfamPF031954.1E-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: 227 aa     Download sequence    Send to blast
MSSSGNPSSS GGGGPCGACK FLRRKCVAGC IFAPYFDSEQ GAAHFAAVHK VFGASNVSKL  60
LQHVPEHKRP DAVVSICFEA QARLRDPIYG CVSHIVSLQQ QVVSLQTELS YLQAHLATLE  120
LPQPQPPQVP VSSSGSLQAL SITDLPSISP SVYDLSSIFE PVMSSTWAMQ QQPRPSDHLF  180
GVPSSSNIGG GGELQALARE FIHGGQMPAQ PSPGTSGSGS TVIKRE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-3971163111LOB family transfactor Ramosa2.1
5ly0_B1e-3971163111LOB 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap490546
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4738520.0AB473852.1 Arabidopsis thaliana ASL19 mRNA for ASYMMETRIC LEAVES2-like 19 protein, complete cds.
GenBankAF4322320.0AF432232.1 Arabidopsis thaliana LOB DOMAIN 30 (LBD30) mRNA, complete cds.
GenBankBT0264070.0BT026407.1 Arabidopsis thaliana At4g00220 mRNA, complete cds.
GenBankDQ4467870.0DQ446787.1 Arabidopsis thaliana clone pENTR221-At4g00220 LOB domain protein 30/lateral organ boundaries domain protein 30 (At4g00220) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020879138.11e-163LOB domain-containing protein 30
SwissprotO813231e-137LBD30_ARATH; LOB domain-containing protein 30
TrEMBLD7M5R61e-162D7M5R6_ARALL; LOB domain protein 30
STRINGfgenesh2_kg.6__3680__AT4G00220.11e-163(Arabidopsis lyrata)
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-115LBD 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]