PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.3KG535400.1.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: 209aa    MW: 21987.6 Da    PI: 8.5521
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG535400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD141.62e-13731125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         C+gCr lL YPrGApsV+Ca+C++V
  Pavir.3KG535400.1.p  7 CHGCRSLLLYPRGAPSVCCAVCHAV 31
                         ************************9 PP

2zf-LSD143.93.9e-147599125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         CggC+tlL+Y+r+A+ VRC++CdtV
  Pavir.3KG535400.1.p 75 CGGCQTLLMYTRNATTVRCSCCDTV 99
                         ************************9 PP

3zf-LSD150.53.3e-16113137125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+C+t+L+YP+GApsV+Ca+C+++
  Pavir.3KG535400.1.p 113 CGQCQTVLMYPYGAPSVKCAICNFI 137
                          ***********************86 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010537.0E-13434IPR005735Zinc finger, LSD1-type
PfamPF069434.2E-11731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.3E-1373102IPR005735Zinc finger, LSD1-type
PfamPF069432.3E-117599IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.2E-11110139IPR005735Zinc finger, LSD1-type
PfamPF069432.9E-14113137IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 209 aa     Download sequence    Send to blast
MQSQIVCHGC RSLLLYPRGA PSVCCAVCHA VTTVPPPGSA SELWFLLVHN RTSKAHALAH  60
PAHEQKGMEM ARLICGGCQT LLMYTRNATT VRCSCCDTVN LVRPVSSIAH VNCGQCQTVL  120
MYPYGAPSVK CAICNFITNI GGHQVPMVRP LPPALPASSG NSYNIPSTSA PTSQSQNVTV  180
VVENPMTVDD KGKLVSNVVV GVTTGGKK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.72770.0callus| leaf| root
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.3KG535400.1.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_025805780.11e-120protein LOL2-like isoform X1
SwissprotQ2QMB33e-93LOL2_ORYSJ; Protein LOL2
TrEMBLA0A2S3HFC71e-118A0A2S3HFC7_9POAL; Uncharacterized protein
TrEMBLA0A2T7EJ691e-118A0A2T7EJ69_9POAL; Uncharacterized protein
STRINGPavir.J37999.1.p1e-151(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-41lsd 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]