PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.010G101200.2
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: 421aa    MW: 47180.2 Da    PI: 8.2142
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.010G101200.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.17.4e-065678123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        y+C++C++ F r  nL+ H r+H
  Potri.010G101200.2 56 YVCEICSQGFQRDQNLQMHRRRH 78
                        9*********************9 PP
2zf-C2H216.23.1e-05133155123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         ++C++C+k +  +s++k H++t+
  Potri.010G101200.2 133 WVCEKCSKGYAVQSDYKAHLKTC 155
                         58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576677.28E-55379No hitNo description
Gene3DG3DSA:3.30.160.605.9E-55578IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0115678IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9075678IPR007087Zinc finger, C2H2
PROSITE patternPS0002805878IPR007087Zinc finger, C2H2
SMARTSM0035517097127IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.3E-4124154IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035560133160IPR015880Zinc 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: 421 aa     Download sequence    Send to blast
MGSPIKEKEN LQAHQVGALQ GQKNKNNPHI ETLYPLYPDA EVVSLSPRTL LESDRYVCEI  60
CSQGFQRDQN LQMHRRRHKV PWKLLKRETQ EVKKRVYVCP EPSCLHHDPC HALGDLVGIK  120
KHFRRKHSNH KQWVCEKCSK GYAVQSDYKA HLKTCGTRGH SCDCGRVFSR VESFIEHQDA  180
CTVRRAQPEL QALQPAACSS RTASSTSPSS DANFSIVPLP GIPMSKATEP VYFYSDRNDA  240
STSQQEHNLE LQLLPSSSTH FPQNPDEGYA TNLKLSIGSS DSLKKNEQFK AIMDPSGPKR  300
TYEPTLEAAK LEEFANEQLR LAITEKAYAE EARQHAKRQI EMAELEFANA KRIRQQAQAE  360
LEKAQVLREQ ATKKISSTIM QVTCQACKLQ FKLSTAAASA DETSLAMSYM SSATTEGDGE  420
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-18131181555Zinc finger protein JACKDAW
5b3h_F6e-18131181555Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.21080.0leaf
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.010G101200.2
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
GenBankEF1470670.0EF147067.1 Populus trichocarpa clone WS01227_A11 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024465323.10.0protein SHOOT GRAVITROPISM 5 isoform X2
SwissprotF4IPE31e-155IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A2K1YRR70.0A0A2K1YRR7_POPTR; Uncharacterized protein
STRINGPOPTR_0010s11160.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68130.11e-140indeterminate(ID)-domain 14
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]