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 Sevir.3G402500.1.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family LSD
Protein Properties Length: 180aa    MW: 18835.1 Da    PI: 8.5976
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.3G402500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD138.42e-12731125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C+gCr lL YPrGApsV+Ca+C  V
  Sevir.3G402500.1.p  7 CHGCRRLLLYPRGAPSVCCAVCRVV 31
                        **********************987 PP
2zf-LSD138.22.3e-124670125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        CggC+tlL+Y+ +A+ VRC++CdtV
  Sevir.3G402500.1.p 46 CGGCQTLLMYTCNATTVRCSCCDTV 70
                        ************************9 PP
3zf-LSD147.92.1e-1584108125
             zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                         Cg C+t+L+YP+GApsV+Ca+C+++
  Sevir.3G402500.1.p  84 CGRCQTVLMYPYGAPSVKCAICNFI 108
                         ***********************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010538.4E-11432IPR005735Zinc finger, LSD1-type
PfamPF069432.2E-10731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.3E-114473IPR005735Zinc finger, LSD1-type
PfamPF069431.1E-94670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.3E-1181111IPR005735Zinc finger, LSD1-type
PfamPF069437.0E-1484108IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 180 aa     Download sequence    Send to blast
MQSQIVCHGC RRLLLYPRGA PSVCCAVCRV VSTVPPPGME MARLICGGCQ TLLMYTCNAT  60
TVRCSCCDTV NLVRPVSSIA HVNCGRCQTV LMYPYGAPSV KCAICNFITS VGGHQVPTVR  120
PLPPTLPASS GNSYNIPSTS APMSQSQNVT VVVENPMTVD DKGKLVSNVV VGVTTGGKK*
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.3G402500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF3146990.0KF314699.1 Setaria italica clone Si18S 18S ribosomal RNA gene, partial sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004963154.11e-125protein LOL2 isoform X1
SwissprotQ2QMB31e-94LOL2_ORYSJ; Protein LOL2
TrEMBLK3ZA361e-123K3ZA36_SETIT; Uncharacterized protein
STRINGSi023407m1e-124(Setaria italica)
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
AT1G32540.13e-53lsd 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]
  2. Wu J, et al.
    OsLOL1, a C2C2-type zinc finger protein, interacts with OsbZIP58 to promote seed germination through the modulation of gibberellin biosynthesis in Oryza sativa.
    Plant J., 2014. 80(6): p. 1118-30
    [PMID:25353370]