PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bradi3g16400.2.p
Common NameBRADI_3g16400
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family LSD
Protein Properties Length: 210aa    MW: 22960 Da    PI: 8.0187
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g16400.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD143.45.7e-143054125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      C+gCr+lL+YP+GA+sV+Ca+C tV
  Bradi3g16400.2.p 30 CSGCRNLLMYPAGATSVCCAVCSTV 54
                      ***********************99 PP
2zf-LSD1468.3e-156993125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      CggC+tlL+Y rGA+sV+C++C+tV
  Bradi3g16400.2.p 69 CGGCHTLLMYIRGATSVQCSCCHTV 93
                      ************************9 PP
3zf-LSD137.73.5e-12107131125
           zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                       Cg+Cr lL+Y +GA+sV+Ca+C +V
  Bradi3g16400.2.p 107 CGNCRMLLMYQYGARSVKCAVCSFV 131
                       **********************988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.8E-132757IPR005735Zinc finger, LSD1-type
PfamPF069433.1E-113054IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.6E-146695IPR005735Zinc finger, LSD1-type
PfamPF069432.3E-126993IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.8E-11104133IPR005735Zinc finger, LSD1-type
PfamPF069431.2E-11107131IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009814Biological Processdefense response, incompatible interaction
GO:0034051Biological Processnegative regulation of plant-type hypersensitive response
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:0045595Biological Processregulation of cell differentiation
GO:2000121Biological Processregulation of removal of superoxide radicals
Sequence ? help Back to Top
Protein Sequence    Length: 210 aa     Download sequence    Send to blast
MPVPLAPYPT PPAPFTPPTP NAGAQSQLVC SGCRNLLMYP AGATSVCCAV CSTVTAVPAP  60
GTEMAQLVCG GCHTLLMYIR GATSVQCSCC HTVNLAMEAN QVAHVNCGNC RMLLMYQYGA  120
RSVKCAVCSF VTSVGVSIHH FLFSIISYFC HENFIWIYII QLSLLLLLYR KPEFHLMPAR  180
PEESYYCLSF FRQHLVQTRS PATETHARL*
Functional Description ? help Back to Top
Source Description
UniProtNegative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269|PubMed:15915636}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi3g16400.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. Down-regulated by dark. {ECO:0000269|PubMed:15915636}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2492581e-154AK249258.1 Hordeum vulgare subsp. vulgare cDNA clone: FLbaf27e22, mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003573460.16e-93protein LSD1 isoform X1
RefseqXP_010234376.16e-93protein LSD1 isoform X1
SwissprotQ0J7V94e-77LSD1_ORYSJ; Protein LSD1
TrEMBLA0A0Q3HPE21e-151A0A0Q3HPE2_BRADI; Uncharacterized protein
STRINGBRADI3G16400.12e-92(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP134738124
Representative plantOGRP11461753
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32540.31e-58lsd one like 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]