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.6NG022700.1.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: 159aa    MW: 16677 Da    PI: 8.7917
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6NG022700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD122.71.6e-07730124
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdt 24
                         C+gC+ +L+Y rGA  V+C+ C+t
  Pavir.6NG022700.1.p  7 CSGCKRVLQYRRGAAGVCCPGCNT 30
                         ***********************9 PP

2zf-LSD125.71.9e-0884108125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+Crt+L+YP+GA+ V C+ C  V
  Pavir.6NG022700.1.p  84 CGHCRTTLAYPPGASTVGCPTCRCV 108
                          **********************876 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010537.6E-8432IPR005735Zinc finger, LSD1-type
PfamPF069433.2E-6730IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.5E-74471IPR005735Zinc finger, LSD1-type
PfamPF069439.3E-84668IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010539.3E-881110IPR005735Zinc finger, LSD1-type
PfamPF069435.9E-884108IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 159 aa     Download sequence    Send to blast
MQDQLICSGC KRVLQYRRGA AGVCCPGCNT FTAANQSGPD MSELVCGGCF TMLVHNRGAA  60
NIRCPHCGRV NSTRSENQIG HLSCGHCRTT LAYPPGASTV GCPTCRCVNP VRNNSGGSAR  120
PAPSDARPQT VLVENPKTLD EKGKLVSNVA VGVTSWKR*
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.6NG022700.1.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_025819951.11e-107protein LOL4-like isoform X2
SwissprotQ84UR01e-76LOL4_ORYSJ; Protein LOL4
TrEMBLA0A2T7D3181e-105A0A2T7D318_9POAL; Uncharacterized protein
TrEMBLA0A2T8IEW41e-105A0A2T8IEW4_9POAL; Uncharacterized protein
TrEMBLA0A3L6PMF81e-105A0A3L6PMF8_PANMI; Protein LOL4-like isoform X2
STRINGSi014280m1e-101(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
AT4G20380.76e-40LSD 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]