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 Cagra.3519s0014.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family LSD
Protein Properties Length: 151aa    MW: 16596.7 Da    PI: 4.8742
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.3519s0014.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD139.49.9e-135781125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         Cg+Cr lLsY rG+++V+C++C+tV
  Cagra.3519s0014.1.p 57 CGSCRRLLSYLRGSKRVKCSCCHTV 81
                         ************************9 PP
2zf-LSD147.23.6e-1595119125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          C++C++lL+YP+GApsVRC++C+ +
  Cagra.3519s0014.1.p  95 CNNCKVLLMYPYGAPSVRCSSCNSI 119
                          **********************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010534.2E-175484IPR005735Zinc finger, LSD1-type
PfamPF069433.8E-95781IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.7E-1192120IPR005735Zinc finger, LSD1-type
PfamPF069434.5E-1395119IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009617Biological Processresponse to bacterium
Sequence ? help Back to Top
Protein Sequence    Length: 151 aa     Download sequence    Send to blast
MEEKKEEQNP REKEEEEEEE EGPPPGWESA VLPPPTAAAV NPNPTTAEIP EMAQMVCGSC  60
RRLLSYLRGS KRVKCSCCHT VNLVLEANQV GQVNCNNCKV LLMYPYGAPS VRCSSCNSIT  120
DIRENNKRSP WSEQQGPLKS VSSCPVSRES *
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
PlantRegMapCagra.3519s0014.1.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
GenBankBT0117601e-135BT011760.1 Arabidopsis thaliana At4g21610 mRNA, complete cds.
GenBankBT0123841e-135BT012384.1 Arabidopsis thaliana At4g21610 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006286008.24e-96protein LOL2
SwissprotO654265e-74LOL2_ARATH; Protein LOL2
TrEMBLR0FAZ62e-93R0FAZ6_9BRAS; Uncharacterized protein
STRINGCagra.3519s0014.1.p1e-104(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM136112226
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21610.12e-59lsd one like 2