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 PGSC0003DMP400054080
Common NameLOC102603699
Organism
Solanum tuberosum
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
Family C2H2
Protein Properties Length: 438aa    MW: 48830.5 Da    PI: 8.8953
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400054080genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.65.1e-065476123
                          EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                          y+C++C++ F r  nL+ H r+H
  PGSC0003DMP400054080 54 YVCEICNQGFQRDQNLQMHRRRH 76
                          9*********************9 PP
2zf-C2H216.13.2e-05131153123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           ++C++C+k +  +s++k H++t+
  PGSC0003DMP400054080 131 WVCEKCSKGYAVQSDYKAHLKTC 153
                           58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.64E-55376No hitNo description
Gene3DG3DSA:3.30.160.601.8E-55376IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.975476IPR007087Zinc finger, C2H2
SMARTSM003550.00525476IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805676IPR007087Zinc finger, C2H2
PROSITE patternPS01359056136IPR019786Zinc finger, PHD-type, conserved site
SMARTSM0035519095125IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.5E-4122152IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.64E-5126151No hitNo description
SMARTSM0035560131158IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009590Biological Processdetection of gravity
GO:0009959Biological Processnegative gravitropism
GO:0009965Biological Processleaf morphogenesis
GO:0010031Biological Processcircumnutation
GO:0010601Biological Processpositive regulation of auxin biosynthetic process
GO:0048444Biological Processfloral organ morphogenesis
GO:2000012Biological Processregulation of auxin polar transport
GO:2000904Biological Processregulation of starch metabolic process
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 438 aa     Download sequence    Send to blast
MLSNNNPSSS SDPFNSSENA NNASRRKRRP AGTPDPDAEV VSLSPKTLLE SDRYVCEICN  60
QGFQRDQNLQ MHRRRHKVPW KLLKRETPIV RKRVFVCPEP TCLHHDPCHA LGDLVGIKKH  120
FRRKHSNHKQ WVCEKCSKGY AVQSDYKAHL KTCGTRGHSC DCGRVFSRVE SFIEHQDACS  180
MGRLRSESQS LHPPCLSRTA SSTPSPSSDT NVSTTPWSST LLKKLSSAAA AATHHANPNI  240
IKSCTNKHNL ELQLLTTTTS SSSPAFDVSV SSKPNEDHSA YNLQLSIGSS DFNESSENAN  300
EKRSSDALRL KDEAMEQLRV AMSEKAYAEE ARQQAKRQIE LAEQEFANAK RIRQQAQAEL  360
DKANALKEHA IKQINSTLSQ ITCHSCKQKF QSTTRVSIVD ENNSLALSYI SSGLSEGHHH  420
EVANNINQNE HLKLSQR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-18127179355Zinc finger protein JACKDAW
5b3h_F5e-18127179355Zinc 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00254DAPTransfer from AT2G01940Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400054080
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015159408.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like isoform X1
RefseqXP_015159409.10.0PREDICTED: protein SHOOT GRAVITROPISM 5-like isoform X2
SwissprotF4IPE31e-152IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLM1D2C60.0M1D2C6_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000797350.0(Solanum tuberosum)
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
AT2G01940.11e-106C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. 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]
  4. 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]
  5. 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]
  6. 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]