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 Potri.017G017100.2
Common NamePOPTR_0017s04840g
Organism
Populus trichocarpa
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: 420aa    MW: 46097.9 Da    PI: 9.436
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.017G017100.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.93.7e-05828323
                        ETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                        C++Cgk F r  nL+ H r H
  Potri.017G017100.2  8 CEICGKGFQRDQNLQLHRRGH 28
                        *******************88 PP
2zf-C2H213.70.0001982104123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC++C+k++  +s+ k H +t+
  Potri.017G017100.2  82 WKCEKCSKRYAVQSDWKAHSKTC 104
                         58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.92E-6528No hitNo description
Gene3DG3DSA:3.30.160.603.5E-5528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.076628IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.489628IPR007087Zinc finger, C2H2
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.3E-470103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.92E-677102No 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: 420 aa     Download sequence    Send to blast
MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVKKRVYVCP EKTCVHHHPS  60
RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYK CDCGTLFSRR  120
DSFITHRAFC DALAEETARV NAVSSINNLT AGSINYHLMG NPLGPNMAQH FSSIFKPISS  180
NDHQTRQGGV SLWMNQGVPQ VSEALMGNNI QEIHQLRSAN SSGAMFGDLL AVSCSHAPPS  240
DHYQFNWPVF GNKISSNNAH EELTSTLVLP LTNVKEAAAA SQLASVPSLY STQQQQSHQT  300
TSANMSATAL LQKAAQIGAT STDPSFLGSF ALKSNAKKVQ DGNKFCGLYG SSPVSTNPAS  360
DVENSGSDQI SSLNQLQMYP KRQKIFQSDQ DSPAGGQTRD FLGVGVQAIC HPSSINGWI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-3778147372Zinc finger protein JACKDAW
5b3h_F3e-3778147372Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}.
UniprotTISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.017G017100.2
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
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
SwissprotQ9FFH31e-141IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLU5FMI70.0U5FMI7_POPTR; C2H2 family protein
STRINGPOPTR_0017s04840.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G44160.11e-140C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  2. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]