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 Sopen06g028730.1
Organism
Solanum pennellii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family C2H2
Protein Properties Length: 398aa    MW: 45539.4 Da    PI: 8.8545
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen06g028730.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.79.7e-065577123
                      EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                      y C++C++ F r  nL+ H r+H
  Sopen06g028730.1 55 YICEICNQGFQRDQNLQMHRRRH 77
                      89********************9 PP
2zf-C2H216.81.9e-05132154123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C++C+k +  +s++k H++t+
  Sopen06g028730.1 132 WVCEKCNKGYAVQSDYKAHLKTC 154
                       58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.46E-55477No hitNo description
Gene3DG3DSA:3.30.160.601.1E-55477IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.8665577IPR007087Zinc finger, C2H2
SMARTSM003550.00655577IPR015880Zinc finger, C2H2-like
PROSITE patternPS01359057137IPR019786Zinc finger, PHD-type, conserved site
PROSITE patternPS0002805777IPR007087Zinc finger, C2H2
SMARTSM0035519096126IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.7E-4123153IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.46E-5127152No hitNo description
SMARTSM0035546132159IPR015880Zinc 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: 398 aa     Download sequence    Send to blast
MFNSSSDPFI TSSEINENNC INNNNKRKRR PAGTPDPDAE VVSLSPKTLL ESDRYICEIC  60
NQGFQRDQNL QMHRRRHKVP WKLLKRETPI VKKRVFVCPE PTCLHHDPCH ALGDLVGIKK  120
HFRRKHSNHK QWVCEKCNKG YAVQSDYKAH LKTCGTRGHS CDCGRVFSRV ESFIEHQDAC  180
SFGRLRSESQ SLIQLPSAPC LSRTASSPSP SSDHTNNLIT TTNTIPWPNF IINTPNAMIK  240
KHNLELQLLT TTSTTTTSPC SPFDVSISSK SRDDHNLQLS IGSSDLSENN NNDTHRWRND  300
VEGLRHALAE KVYAEETRKE ARREIELAEE ELSNARRIRR QAQMELEKAQ VLKEEAIRKI  360
NFTLSQITCY ACKQNFQPKK ITTTSIDQNI HLKYSTCQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-17128180355Zinc finger protein JACKDAW
5b3h_F3e-17128180355Zinc finger protein JACKDAW
Search in ModeBase
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}.
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
GenBankHG9754450.0HG975445.1 Solanum pennellii chromosome ch06, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015077845.10.0zinc finger protein SHOOT GRAVITROPISM 5-like
SwissprotF4IPE31e-141IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A3Q7H1Z40.0A0A3Q7H1Z4_SOLLC; Uncharacterized protein
STRINGSolyc06g072360.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10222482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68130.11e-121indeterminate(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]