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 PGSC0003DMP400004411
Common NameLOC102585450
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: 447aa    MW: 48671.6 Da    PI: 9.1486
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400004411genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.2e-05628123
                          EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                          ++C++C+k F r  nL+ H r H
  PGSC0003DMP400004411  6 FVCEICNKGFQRDQNLQLHRRGH 28
                          89*******************88 PP
2zf-C2H213.60.000282104123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           +kC++C+k++  +s+ k H +t+
  PGSC0003DMP400004411  82 WKCEKCSKRYAVQSDWKAHSKTC 104
                           58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.4E-5528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.91E-7528No hitNo description
PfamPF121716.9E-5628IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.949628IPR007087Zinc finger, C2H2
SMARTSM003550.017628IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
SMARTSM003552504777IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.4E-470103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.91E-777102No hitNo description
SMARTSM0035513082102IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 447 aa     Download sequence    Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTSK EIRKKVYVCP ETSCVHHDPA  60
RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTKEYR CDCGTLFSRR  120
DSFITHRAFC DALAEESARA ITGNPILPSQ AGSSTSQMNF QFQPFNHEIP VTFSLKKEQQ  180
TGFNLRPEIP PWLLVGGGGG PGPGPPQPHP IDLSSSIFQS SRFSDQDYTQ SHHHQQGGFM  240
NPNPSLSGPT SGAMASPHIS ATALLQKAAQ MGATMSNKAS TVSAVSSGPG PAMLMRPHQI  300
HVSATATAAV SVSNTTDFGL NLSSREDLTT GFFNSLASYG NKAANPSAVI APVTIPLSTA  360
PHPTPSLQDM MNSYSSANPT GFEGSNFDDP FSILNPKNEN GGGNDDMTKD FLGLRPLSHS  420
DIFNIAGLVK YTPNENQSQN HKTWQS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-3578139364Zinc finger protein JACKDAW
5b3h_F3e-3578139364Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13244KLKQRTSKEIRKK
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269|PubMed:25035403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00206DAPTransfer from AT1G55110Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400004411
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0136590.0BT013659.1 Lycopersicon esculentum clone 132478R, mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006342975.10.0PREDICTED: protein indeterminate-domain 7-like
RefseqXP_006342976.10.0PREDICTED: protein indeterminate-domain 7-like
SwissprotQ9SCQ61e-99IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBLM0ZR950.0M0ZR95_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000063850.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.23e-98C2H2 family protein
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]
  2. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  4. Khare D, et al.
    Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana.
    New Phytol., 2017. 213(3): p. 1257-1273
    [PMID:27768815]