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 PGSC0003DMP400012237
Common NameLOC107062558
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family LBD
Protein Properties Length: 169aa    MW: 18906.2 Da    PI: 8.7677
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400012237genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF2601361.4e-4211109199
                DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 
                           +CaaCk+lrrkC ++Cv+apyfp e+p kf  vhk+FGasnv+kll+++++++reda++sl+yeAear++dPvyG+vg i+ lq+q+ +
  PGSC0003DMP400012237  11 PCAACKFLRRKCLPSCVFAPYFPPEEPIKFTTVHKVFGASNVSKLLNEIQPHQREDAVNSLAYEAEARLKDPVYGCVGAISVLQRQVIR 99 
                           7**************************************************************************************** PP

                DUF260  90 lkaelallke 99 
                           l++el+++++
  PGSC0003DMP400012237 100 LQKELDATNA 109
                           *****99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089126.91810111IPR004883Lateral organ boundaries, LOB
PfamPF031952.9E-4211108IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 169 aa     Download sequence    Send to blast
MSSTSKYSTP PCAACKFLRR KCLPSCVFAP YFPPEEPIKF TTVHKVFGAS NVSKLLNEIQ  60
PHQREDAVNS LAYEAEARLK DPVYGCVGAI SVLQRQVIRL QKELDATNAD LMRYANYEKV  120
NNNQERNHNF QYGRRMVNSG YYNYSSAWNN GISGGHNNIG TDNCDGGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A2e-6321182118LOB family transfactor Ramosa2.1
5ly0_B2e-6321182118LOB family transfactor Ramosa2.1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400012237
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755140.0HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015168799.11e-125PREDICTED: LOB domain-containing protein 25-like
SwissprotQ8L8Q36e-65LBD25_ARATH; LOB domain-containing protein 25
TrEMBLM1A9H41e-124M1A9H4_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000178051e-125(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4324669
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G27650.12e-67LOB domain-containing protein 25
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Kim M,Kim MJ,Pandey S,Kim J
    Expression and Protein Interaction Analyses Reveal Combinatorial Interactions of LBD Transcription Factors During Arabidopsis Pollen Development.
    Plant Cell Physiol., 2016. 57(11): p. 2291-2299
    [PMID:27519310]