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 Pahal.C04716.1
Organism
Panicum hallii
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; Panicinae; Panicum
Family LSD
Protein Properties Length: 180aa    MW: 18724.8 Da    PI: 8.4389
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.C04716.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD141.91.6e-13731125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    C+gCr lL YPrGApsV+Ca+C++V
  Pahal.C04716.1  7 CHGCRSLLLYPRGAPSVCCAVCHAV 31
                    ************************9 PP
2zf-LSD144.23.1e-144670125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    CggC+tlL+Y+r+A+ VRC++CdtV
  Pahal.C04716.1 46 CGGCQTLLMYTRNATTVRCSCCDTV 70
                    ************************9 PP
3zf-LSD150.82.7e-1684108125
         zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                     Cg+C+t+L+YP+GApsV+Ca+C+++
  Pahal.C04716.1  84 CGQCQTVLMYPYGAPSVKCAICNFI 108
                     ***********************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010535.5E-13434IPR005735Zinc finger, LSD1-type
PfamPF069433.4E-11731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.0E-134473IPR005735Zinc finger, LSD1-type
PfamPF069431.9E-114670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.0E-1181110IPR005735Zinc finger, LSD1-type
PfamPF069432.4E-1484108IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 180 aa     Download sequence    Send to blast
MQSQIVCHGC RSLLLYPRGA PSVCCAVCHA VTTVPPPGME MARLICGGCQ TLLMYTRNAT  60
TVRCSCCDTV NLVRPVSSIA HVNCGQCQTV LMYPYGAPSV KCAICNFITN VGGHQVPTVR  120
PLPPALPASS GNSYNIPSTS APTSQSQNVT 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}.
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_025805780.11e-126protein LOL2-like isoform X1
SwissprotQ2QMB31e-100LOL2_ORYSJ; Protein LOL2
TrEMBLA0A2S3HFC71e-125A0A2S3HFC7_9POAL; Uncharacterized protein
TrEMBLA0A2T7EJ691e-125A0A2T7EJ69_9POAL; Uncharacterized protein
STRINGPavir.J37999.1.p1e-119(Panicum virgatum)
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-47lsd 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]