PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.6KG032000.1.p
Organism
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: 160aa    MW: 16765.2 Da    PI: 8.9117
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG032000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD124.44.8e-08730124
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdt 24
                         C+gC+ +L+Y rGA+ V+C++C t
  Pavir.6KG032000.1.p  7 CSGCKRVLQYRRGATGVCCPSCST 30
                         **********************98 PP

2zf-LSD123.87.5e-084668123
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCd 23
                         CggC t+L Y rGA ++RC+ C 
  Pavir.6KG032000.1.p 46 CGGCFTMLVYNRGAANIRCPHCG 68
                         **********************7 PP

3zf-LSD125.71.9e-0884108125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+Crt+L+YP+GA+ V C+ C  V
  Pavir.6KG032000.1.p  84 CGHCRTTLAYPPGASTVGCPTCRCV 108
                          **********************876 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.5E-8432IPR005735Zinc finger, LSD1-type
PfamPF069431.7E-6730IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.4E-94471IPR005735Zinc finger, LSD1-type
PfamPF069435.0E-94668IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010539.4E-881110IPR005735Zinc finger, LSD1-type
PfamPF069435.9E-884108IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 160 aa     Download sequence    Send to blast
MQDQLICSGC KRVLQYRRGA TGVCCPSCST FTAANPSGSE MSELVCGGCF TMLVYNRGAA  60
NIRCPHCGRV NSTRSANQIG HLSCGHCRTT LAYPPGASTV GCPTCRCVNP VRNNNSGGSA  120
RPAPSDARPQ TVLVENPKTL DEKGKLVSNV AVGVTSWKR*
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
PlantRegMapPavir.6KG032000.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004972942.11e-110protein LOL4 isoform X2
SwissprotQ84UR08e-77LOL4_ORYSJ; Protein LOL4
TrEMBLA0A368RJ301e-109A0A368RJ30_SETIT; Uncharacterized protein
TrEMBLA0A368RJH21e-109A0A368RJH2_SETIT; Uncharacterized protein
STRINGSi014280m1e-107(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP123332938
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.72e-39LSD family protein
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]