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 HL.SW.v1.0.G000543.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus
Family LSD
Protein Properties Length: 163aa    MW: 17061.8 Da    PI: 8.4364
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
HL.SW.v1.0.G000543.1genomeHOPBASEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD136.67.3e-12731125
               zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                          C+gCr++L YPrG+ +V+Ca+C t+
  HL.SW.v1.0.G000543.1  7 CSGCRNVLLYPRGSANVCCAICSTI 31
                          **********************997 PP

2zf-LSD149.85.4e-164670125
               zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                          CggCrtlL+Y+rGA+sVRC++C+tV
  HL.SW.v1.0.G000543.1 46 CGGCRTLLMYTRGATSVRCSCCHTV 70
                          ************************9 PP

3zf-LSD1291.8e-098499116
               zf-LSD1  1 CggCrtlLsYPrGAps 16
                          Cg+Crt+L+YP+GAps
  HL.SW.v1.0.G000543.1 84 CGNCRTTLMYPFGAPS 99
                          ***************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010536.6E-12434IPR005735Zinc finger, LSD1-type
PfamPF069439.0E-10731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.6E-174372IPR005735Zinc finger, LSD1-type
PfamPF069432.3E-134670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.2E-68199IPR005735Zinc finger, LSD1-type
PfamPF069432.9E-784100IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000303Biological Processresponse to superoxide
GO:0001666Biological Processresponse to hypoxia
GO:0002240Biological Processresponse to molecule of oomycetes origin
GO:0009626Biological Processplant-type hypersensitive response
GO:0009862Biological Processsystemic acquired resistance, salicylic acid mediated signaling pathway
GO:0010104Biological Processregulation of ethylene-activated signaling pathway
GO:0010310Biological Processregulation of hydrogen peroxide metabolic process
GO:0010602Biological Processregulation of 1-aminocyclopropane-1-carboxylate metabolic process
GO:0010618Biological Processaerenchyma formation
GO:0043069Biological Processnegative regulation of programmed cell death
Sequence ? help Back to Top
Protein Sequence    Length: 163 aa     Download sequence    Send to blast
MQSQLVCSGC RNVLLYPRGS ANVCCAICST ITSVPPPGME MAQLICGGCR TLLMYTRGAT  60
SVRCSCCHTV NLAPGSNQMA HVNCGNCRTT LMYPFGAPSM GNMRVPIPVH RPNGINSGTM  120
PSTSSPLPHS QSQTVVVENP MSVDESGKLV SNVVVGVTTE KK*
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
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_024022803.11e-100protein LSD1
RefseqXP_024022804.11e-100protein LSD1
RefseqXP_024022805.11e-100protein LSD1
SwissprotQ2QMB34e-64LOL2_ORYSJ; Protein LOL2
TrEMBLA0A2P5FZT01e-100A0A2P5FZT0_TREOI; Zinc finger, LSD1-type
STRINGXP_008225697.13e-92(Prunus mume)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40273361
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.77e-63LSD 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]
  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]