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 Carubv10007536m
Common NameCARUB_v10007536mg
Organism
Capsella rubella
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: 16650.8 Da    PI: 5.8186
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10007536mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD136.77e-125780124
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdt 24
                     Cg+Cr lLsY rG+++V+C++C+t
  Carubv10007536m 57 CGSCRRLLSYLRGSKRVKCSCCHT 80
                     ***********************8 PP
2zf-LSD144.91.9e-1495119125
          zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                      C++C++lL+YP+GAp+VRC++C+ +
  Carubv10007536m  95 CNNCKVLLMYPYGAPAVRCSSCNSI 119
                      **********************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.2E-165484IPR005735Zinc finger, LSD1-type
PfamPF069431.9E-85780IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.8E-1192120IPR005735Zinc finger, LSD1-type
PfamPF069432.5E-1295119IPR005735Zinc 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
MEEKKEDQNH RKKEEEEEEE EGPPPGWESA VLPPPTAAAV NPNPTTAEIP EMAQMVCGSC  60
RRLLSYLRGS KRVKCSCCHT LNLVLEANQV GQVNCNNCKV LLMYPYGAPA VRCSSCNSIT  120
DIRENNKRSP WSEQQGPLKS VSSCQVSRES *
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
PlantRegMapCarubv10007536m
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-133BT011760.1 Arabidopsis thaliana At4g21610 mRNA, complete cds.
GenBankBT0123841e-133BT012384.1 Arabidopsis thaliana At4g21610 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006286008.21e-107protein LOL2
SwissprotO654262e-74LOL2_ARATH; Protein LOL2
TrEMBLR0FAZ61e-105R0FAZ6_9BRAS; Uncharacterized protein
STRINGXP_006286008.11e-105(Capsella rubella)
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
AT4G21610.15e-63lsd one like 2