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 PGSC0003DMP400012771
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: 230aa    MW: 26139.7 Da    PI: 7.6956
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400012771genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.71.1e-061640123
                          EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                          y+C+   Cgk+F+  s L++H  +H
  PGSC0003DMP400012771 16 YVCSeaGCGKVFKYASKLRKHEDSH 40
                          99*******************9888 PP
2zf-C2H221.46.4e-07107131223
                           EET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                           kC+  dC+ +Fs++snL +Hi+  H
  PGSC0003DMP400012771 107 KCEfqDCPHTFSTRSNLAQHIKAvH 131
                           79999****************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.609.1E-81340IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.17E-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
SuperFamilySSF576671.13E-987144No hitNo description
SMARTSM003550.001106131IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.277106136IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.1E-6107133IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280108131IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.2E-5134159IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.6137163IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280139163IPR007087Zinc finger, C2H2
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: 230 aa     Download sequence    Send to blast
MHDQSASAEV DLPKEYVCSE AGCGKVFKYA SKLRKHEDSH VKLETVEAMC LEPGCMKHFT  60
NEKCLKEHIE SCHQHIVCEI CGTKQLKKNI KRHLRTHEEG PISERIKCEF QDCPHTFSTR  120
SNLAQHIKAV HVGAKPFSCS ISGCGMKFAF KHVRDKHEQS GCHVYTPGDF EEADEQFLSR  180
QRGGRKREPT LFESIMRKRI TPPSGTDPVF NQTPEYLSWL GSMESDNQM*
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
PlantRegMapPGSC0003DMP400012771
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ8821790.0DQ882179.1 Lycopersicon esculentum transcription factor IIIA mRNA, complete cds.
GenBankDQ8821800.0DQ882180.1 Lycopersicon esculentum transcription factor IIIA mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006364766.11e-170PREDICTED: zinc finger protein 16
SwissprotQ84MZ43e-84TF3A_ARATH; Transcription factor IIIA
TrEMBLM1AAV01e-170M1AAV0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000185591e-169(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.12e-87transcription 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]