PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.005G027200.1
Common NamePOPTR_0005s02730g
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family C2H2
Protein Properties Length: 520aa    MW: 55978.7 Da    PI: 9.2971
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.005G027200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.5e-0581103123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         ++C++C+k F r  nL+ H r H
  Potri.005G027200.1  81 FVCEICNKGFQRDQNLQLHRRGH 103
                         89*******************88 PP

2zf-C2H213.90.00016157179123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+ k H +t+
  Potri.005G027200.1 157 WKCDKCSKKYAVQSDWKAHVKTC 179
                         58*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.7E-580103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.19E-780103No hitNo description
PROSITE profilePS5015710.94981103IPR007087Zinc finger, C2H2
SMARTSM003550.01781103IPR015880Zinc finger, C2H2-like
PfamPF121718.3E-581103IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS00028083103IPR007087Zinc finger, C2H2
SMARTSM0035586122152IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.2E-5145178IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.19E-7152177No hitNo description
SMARTSM0035590157177IPR015880Zinc 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: 520 aa     Download sequence    Send to blast
MSNTTGDGTG SFSSGGGGDE VHLKSLASST VTATNSNGST ITQQLQQPPV LKKKRNMPGN  60
PDPSADVIAL SPKTLMATNR FVCEICNKGF QRDQNLQLHR RGHNLPWKLK QRASGEIRKR  120
VYICPEPSCV HHNPARALGD LTGIKKHFYR KHGEKKWKCD KCSKKYAVQS DWKAHVKTCG  180
TKEYKCDCGT IFSRRDSFIT HRAFCDALAE ENNKVNQGLM PNMEPNIQGQ ISSLIPSSMA  240
INNNPPSQSA MMSNFSHLDT KNSLSLPQAL MPMPPKPSSG SMFSSSTASL FGGSRSMPFN  300
SSSALQLNAN SSAIFEGNGH HNLAGSASMS ATALLQKAAQ MGATASGNNV SSPMMQKSFV  360
TSMAPPTFGS MHAQNDQSHV IGGDDGYANQ FFNSNGGVGN SVLNDMGMFS AVLDQNNALF  420
KTMEHASSNN ENAFQGANSS PGLSSPTSGA NPSGLSRFSG DMMTVDFLGI GGSRQRNLHD  480
QHNHQEMEFS RGISHPRMQG LNHFEQQQAA ALEKPLWDV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-33153216366Zinc finger protein JACKDAW
5b3h_F2e-33153216366Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.42550.0bud| catkin
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Observed in vegetative tissues. Mainly expressed in hypocotyls, petioles, shoot apices, root tips, and trichomes, and, at low levels, in leaves, stems and flowers. {ECO:0000269|PubMed:25035403}.
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
PlantRegMapPotri.005G027200.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1468250.0EF146825.1 Populus trichocarpa clone WS01214_I21 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002307119.20.0protein indeterminate-domain 2 isoform X1
SwissprotQ9SCQ61e-116IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBLB9H5860.0B9H586_POPTR; C2H2 family protein
STRINGPOPTR_0005s02730.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21923085
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-97C2H2 family protein
Publications ? help Back to Top
  1. 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]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  3. 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]