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.012G040200.1
Common NamePOPTR_0012s03730g
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: 457aa    MW: 51100.4 Da    PI: 8.6343
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.012G040200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.55.4e-065880123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        y+C++C++ F r  nL+ H r+H
  Potri.012G040200.1 58 YVCEICNQGFQRDQNLQMHRRRH 80
                        9*********************9 PP
2zf-C2H2163.4e-05135157123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         ++C++C+k +  +s++k H++t+
  Potri.012G040200.1 135 WVCEKCSKGYAVQSDYKAHLKTC 157
                         58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576675.04E-55581No hitNo description
Gene3DG3DSA:3.30.160.601.9E-55780IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.975880IPR007087Zinc finger, C2H2
SMARTSM003550.00525880IPR015880Zinc finger, C2H2-like
PROSITE patternPS01359060140IPR019786Zinc finger, PHD-type, conserved site
PROSITE patternPS0002806080IPR007087Zinc finger, C2H2
SMARTSM0035521099129IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.8E-4126156IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035560135162IPR015880Zinc 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: 457 aa     Download sequence    Send to blast
MLANNSLSSS LPCNSEPFSC LENGNNINKR KRRPAGTPDP DAEVVSLSPK TLLESDRYVC  60
EICNQGFQRD QNLQMHRRRH KVPWKLLKRE TPVVRKRVFV CPEPSCLHHD PCHALGDLVG  120
IKKHFRRKHS NHKQWVCEKC SKGYAVQSDY KAHLKTCGTR GHSCDCGRVF SRVESFIEHQ  180
DACNMGNLRS ESQSLQPAAC LSRTASSPSP SSDTNFSTAP WLPLIIPRTT PDHAMFFITP  240
TTTSSVVDKS DSSKSAAHYH NLELQLSTAS GNPLEISVSP KREDNHSTQL QLSIGSSDVS  300
DRNESNISYT DKDHGKSSPR ENNNGSPRPE LGASRLKEQV IREQLMMAMA EKIHAEEARQ  360
QAKRQIELAE QEFANAKRIR QQAQAELDKA QALKQHAIKQ INSTILQITC HACKQKFHAR  420
TQADENSLVM SYMSSATTED EVEHINGIGI AKTFNR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-18133184556Zinc finger protein JACKDAW
5b3h_F4e-18133184556Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.5590.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expression levels gradually decrease with aging in both the shoot and root vasculature. {ECO:0000269|PubMed:16813575}.
UniprotTISSUE SPECIFICITY: Mainly expressed in the endodermis, the gravity-sensing tissue in inflorescence stems. Mostly present in stems and flowers, and, to a lower extent, in seedlings, hypocotyls, roots and the shoot apical meristem (SAM). {ECO:0000269|PubMed:16813575}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.012G040200.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1473590.0EF147359.1 Populus trichocarpa clone WS0122_O19 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002318320.10.0protein indeterminate-domain 16
SwissprotF4IPE31e-149IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLB9I4V80.0B9I4V8_POPTR; Uncharacterized protein
STRINGPOPTR_0012s03730.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF17693289
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-145C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kim JY,Ryu JY,Baek K,Park CM
    High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis.
    New Phytol., 2016. 209(1): p. 265-79
    [PMID:26256266]
  3. Ryu JY,Kim JY,Park CM
    Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1093715
    [PMID:26452406]
  4. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  5. Shi H, et al.
    Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17.
    J. Pineal Res., 2018. 65(2): p. e12494
    [PMID:29607541]