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.017G017100.1
Common NamePOPTR_0017s04840g
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: 472aa    MW: 51791.4 Da    PI: 9.7039
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.017G017100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.74.2e-056484323
                        ETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                        C++Cgk F r  nL+ H r H
  Potri.017G017100.1 64 CEICGKGFQRDQNLQLHRRGH 84
                        *******************88 PP

2zf-C2H213.50.00022138160123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC++C+k++  +s+ k H +t+
  Potri.017G017100.1 138 WKCEKCSKRYAVQSDWKAHSKTC 160
                         58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.1E-56184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.82E-66184No hitNo description
PROSITE profilePS5015711.4896284IPR007087Zinc finger, C2H2
SMARTSM003550.0766284IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-4126159IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.82E-6133158No hitNo description
SMARTSM00355130138158IPR015880Zinc 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: 472 aa     Download sequence    Send to blast
MLEKIMATEE AITSSNNGFV ENPVGGSNPP ALKKKRNLPG TPDPEAEVIA LSPKTLMATN  60
RFLCEICGKG FQRDQNLQLH RRGHNLPWKL KQRTNKEVKK RVYVCPEKTC VHHHPSRALG  120
DLTGIKKHFC RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYKCDCG TLFSRRDSFI  180
THRAFCDALA EETARVNAVS SINNLTAGSI NYHLMGNPLG PNMAQHFSSI FKPISSNDHQ  240
TRQGGVSLWM NQGVPQVSEA LMGNNIQEIH QLRSANSSGA MFGDLLAVSC SHAPPSDHYQ  300
FNWPVFGNKI SSNNAHEELT STLVLPLTNV KEAAAASQLA SVPSLYSTQQ QQSHQTTSAN  360
MSATALLQKA AQIGATSTDP SFLGSFALKS NAKKVQDGNK FCGLYGSSPV STNPASDVEN  420
SGSDQISSLN QLQMYPKRQK IFQSDQDSPA GGQTRDFLVM GNFAGRKRWH S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-37134203372Zinc finger protein JACKDAW
5b3h_F3e-37134203372Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.017G017100.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006372765.10.0zinc finger protein NUTCRACKER
SwissprotQ9ZWA61e-148IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLU5FMI70.0U5FMI7_POPTR; C2H2 family protein
STRINGPOPTR_0017s04840.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF46262951
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-147C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]