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 PGSC0003DMP400020118
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: 454aa    MW: 50632.5 Da    PI: 8.8677
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400020118genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.3e-05628123
                          EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                          ++C++C+k F r  nL+ H r H
  PGSC0003DMP400020118  6 FVCEICNKGFQRDQNLQLHRRGH 28
                          89*******************88 PP
2zf-C2H215.84e-0582104123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           +kC +C+k +  +s+ k H++t+
  PGSC0003DMP400020118  82 WKCDKCSKKYAVQSDWKAHQKTC 104
                           58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.5E-5528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.24E-8528No hitNo description
PfamPF121717.1E-5628IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.949628IPR007087Zinc finger, C2H2
SMARTSM003550.017628IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
SMARTSM00355884777IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-570103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.24E-877103No hitNo description
SMARTSM003559482102IPR015880Zinc 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: 454 aa     Download sequence    Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTT EVRKRVYICP EPTCVHHNRA  60
RALGDLTGIK KHYSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR  120
DSFITHRAFC DALAEENNKV NQGLMNNNIE HNMHSGQMHE LMSSNASLGL SEFNNFDPKN  180
SLKSLPQEFL PFPFKSMTNN MAPGGMFSTT SGNLFGNSPR SVASSSSGLQ LSSNIPSNFN  240
YLQDNGKNGV AQGQGQISSV PMSATALLQK AAQMGATASS SINSPMMQKS FVTSAMAGPD  300
ITITRPSPNY ENFQMQQDNN NHQNQNQNHQ LNLAAVMNDM GIYSGILMSN DQNNDAGYIK  360
NVTEVLDCDN HNHSTNDGVR NQTMMVQNGS NDMLTVDFLG IGGASRTPIS NLQEQQRFEA  420
AINQQRLQAT SSFHHQQNIN NNSGLEKPIW DNV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-3578148372Zinc finger protein JACKDAW
5b3h_F5e-3578148372Zinc finger protein JACKDAW
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400020118
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755210.0HG975521.1 Solanum lycopersicum chromosome ch09, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006359407.10.0PREDICTED: protein indeterminate-domain 2-like
SwissprotQ9SCQ66e-94IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBLM1ASZ90.0M1ASZ9_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000295500.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G50700.16e-83indeterminate(ID)-domain 2
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]