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 PGSC0003DMP400027161
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: 514aa    MW: 54201.6 Da    PI: 7.2362
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400027161genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.5e-055678123
                          EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                          ++C++C+k F r  nL+ H r H
  PGSC0003DMP400027161 56 FVCEICNKGFQRDQNLQLHRRGH 78
                          89*******************88 PP
2zf-C2H217.31.4e-05132154123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           +kC +C+k +  +s+Lk H++ +
  PGSC0003DMP400027161 132 WKCDKCSKKYAVQSDLKAHLKIC 154
                           58******************987 PP
3zf-C2H210.80.0016162180523
                           TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                           dCg++Fsr++++ +H   +
  PGSC0003DMP400027161 162 DCGTMFSRRDSFITHRAFC 180
                           8**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.65E-85578No hitNo description
Gene3DG3DSA:3.30.160.601.7E-55578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0175678IPR015880Zinc finger, C2H2-like
PfamPF121718.2E-55678IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.9495678IPR007087Zinc finger, C2H2
PROSITE patternPS0002805878IPR007087Zinc finger, C2H2
SMARTSM0035525097127IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.6E-5120153IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.65E-8127152No hitNo description
SMARTSM0035538132152IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.871132160IPR007087Zinc finger, C2H2
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: 514 aa     Download sequence    Send to blast
MNDCAGSGEV SVLSSGEQAA PCKEAAKKKR NLPGMPDPNA EVVALSPKTL LATNRFVCEI  60
CNKGFQRDQN LQLHRRGHNL PWKLRQRASN EVRKRVYVCP ELTCVHHDPS RALGDLTGIK  120
KHFCRKHGEK KWKCDKCSKK YAVQSDLKAH LKICGTKEYK CDCGTMFSRR DSFITHRAFC  180
DVLAKDTEKA QNAVTTPIAD EDHKVQVVVS STPQTPPTPP PSLEPPAVPS PAALEPLPPP  240
VSPSTAVVSS DSPIQNPAAA AYFQVQLESV AAVYFQVQLE SVAAAAYFQV QLESVAAVYF  300
QVQLESVAAA AYFQVQLESV AAVYFQSVAP APPPDIEPPS SMEPISLCLA MNHSSSVFGP  360
AGQERIQYAA APQPSMSATA LLQKAAQMGA TATNSSLLRG LGILSSSSSS SGQHEWNGRQ  420
IDTDGATLAA GLGLGLPCDD GSGLKELMLG TPSVFGPKHP TLDLLGLGMA AGGGSTPGLS  480
ALITSMGGNL DVAAAAGPFD SGEFCGKEFG RSS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-30128186361Zinc finger protein JACKDAW
5b3h_F5e-30128186361Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400027161
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1746070.0AC174607.1 Solanum lycopersicum, complete sequence.
GenBankHG9754410.0HG975441.1 Solanum pennellii chromosome ch02, complete genome.
GenBankHG9755140.0HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015063319.10.0zinc finger protein GAI-ASSOCIATED FACTOR 1-like isoform X1
SwissprotQ9LVQ71e-161IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLM1B9870.0M1B987_SOLTU; Uncharacterized protein
STRINGXP_009590472.10.0(Nicotiana tomentosiformis)
STRINGPGSC0003DMT4000330390.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G50700.11e-100indeterminate(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]