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 Oropetium_20150105_23170A
Organism
Oropetium thomaeum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium
Family LSD
Protein Properties Length: 132aa    MW: 13842.2 Da    PI: 8.4337
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_23170AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD1474.1e-155478125
                    zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                               CggC+tlL+Y rGA+sV+C++C+tV
  Oropetium_20150105_23170A 54 CGGCHTLLMYIRGATSVQCSCCHTV 78
                               ************************9 PP
2zf-LSD142.11.4e-1392116125
                    zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                                Cg+Cr lL+Y +GA+sV+Ca+C++V
  Oropetium_20150105_23170A  92 CGNCRMLLMYQYGARSVKCAVCNFV 116
                                ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512576117No hitNo description
Gene3DG3DSA:3.90.10.109.7E-450113No hitNo description
TIGRFAMsTIGR010537.3E-155180IPR005735Zinc finger, LSD1-type
PfamPF069431.1E-125478IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.3E-1289119IPR005735Zinc finger, LSD1-type
PfamPF069438.7E-1392116IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0034051Biological Processnegative regulation of plant-type hypersensitive response
GO:0045595Biological Processregulation of cell differentiation
Sequence ? help Back to Top
Protein Sequence    Length: 132 aa     Download sequence    Send to blast
MGRKASLSAP VAGIFSCIQP VQHRYAAQCV VPSPLCWLRP PAFGAGTEMA QLVCGGCHTL  60
LMYIRGATSV QCSCCHTVNL AMEANQVAHV NCGNCRMLLM YQYGARSVKC AVCNFVTSVG  120
ASPGAEQKPS T*
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
PlantRegMapOropetium_20150105_23170A
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
GenBankEU0769019e-94EU076901.1 Bambusa oldhamii LOL1 mRNA, complete cds.
GenBankFP0916669e-94FP091666.1 Phyllostachys edulis cDNA clone: bphyst007l18, full insert sequence.
GenBankFP0942109e-94FP094210.1 Phyllostachys edulis cDNA clone: bphylf003c20, full insert sequence.
GenBankFP0957999e-94FP095799.1 Phyllostachys edulis cDNA clone: bphyst008n09, full insert sequence.
GenBankFP0971069e-94FP097106.1 Phyllostachys edulis cDNA clone: bphyst016n22, full insert sequence.
GenBankFP0978379e-94FP097837.1 Phyllostachys edulis cDNA clone: bphylf033i22, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002445097.12e-55protein LSD1
RefseqXP_004972784.22e-55protein LSD1
RefseqXP_022683193.12e-55protein LSD1
RefseqXP_025820445.12e-55protein LSD1
RefseqXP_025820446.12e-55protein LSD1
RefseqXP_025820447.12e-55protein LSD1
RefseqXP_025820449.12e-55protein LSD1
SwissprotQ0J7V91e-55LSD1_ORYSJ; Protein LSD1
TrEMBLA0A0A9PEQ95e-54A0A0A9PEQ9_ARUDO; Uncharacterized protein
TrEMBLA0A2T7D3S85e-54A0A2T7D3S8_9POAL; Uncharacterized protein
TrEMBLA0A2T8IF355e-54A0A2T8IF35_9POAL; Uncharacterized protein
TrEMBLC5YHD05e-54C5YHD0_SORBI; Uncharacterized protein
TrEMBLK3YK345e-54K3YK34_SETIT; Uncharacterized protein
STRINGPavir.Fa01884.1.p8e-55(Panicum virgatum)
STRINGSi014603m8e-55(Setaria italica)
STRINGSb07g004050.18e-55(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP134738124
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32540.36e-50lsd 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]