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 PGSC0003DMP400012770
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family C2H2
Protein Properties Length: 129aa    MW: 14772 Da    PI: 7.4798
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400012770genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.94.5e-071640123
                          EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                          y+C+   Cgk+F+  s L++H  +H
  PGSC0003DMP400012770 16 YVCSeaGCGKVFKYASKLRKHEDSH 40
                          99*******************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.3E-81340IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.25E-51440No hitNo description
PROSITE profilePS5015711.4271645IPR007087Zinc finger, C2H2
SMARTSM003550.0011640IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002801840IPR007087Zinc finger, C2H2
SMARTSM0035564873IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805073IPR007087Zinc finger, C2H2
SMARTSM00355137697IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 129 aa     Download sequence    Send to blast
MHDQSASAEV DLPKEYVCSE AGCGKVFKYA SKLRKHEDSH VKLETVEAMC LEPGCMKHFT  60
NEKCLKEHIE SCHQHIVCEI CGTKQLKKNI KRHLRTHEEG PISERIKCEF QDCPHTFSTV  120
RTTTFSYM*
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400012770
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ8821791e-168DQ882179.1 Lycopersicon esculentum transcription factor IIIA mRNA, complete cds.
GenBankDQ8821801e-168DQ882180.1 Lycopersicon esculentum transcription factor IIIA mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006364766.13e-80PREDICTED: zinc finger protein 16
SwissprotQ84MZ44e-45TF3A_ARATH; Transcription factor IIIA
TrEMBLM1AAV13e-89M1AAV1_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000185591e-79(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.13e-48transcription factor IIIA
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]