PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Dca6621.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus
Family C2H2
Protein Properties Length: 447aa    MW: 49367.5 Da    PI: 8.5585
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Dca6621.1genomeDCAView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.65.2e-066082123
               EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
               y+C++C++ F r  nL+ H r+H
  Dca6621.1 60 YVCEICNQGFQRDQNLQMHRRRH 82
               9*********************9 PP

2zf-C2H216.62.1e-05137159123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                ++C +C+k +  +s++k H++t+
  Dca6621.1 137 WVCDKCSKAYAVQSDYKAHLKTC 159
                58*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.05E-55982No hitNo description
Gene3DG3DSA:3.30.160.601.8E-55982IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.976082IPR007087Zinc finger, C2H2
SMARTSM003550.00526082IPR015880Zinc finger, C2H2-like
PROSITE patternPS01359062142IPR019786Zinc finger, PHD-type, conserved site
PROSITE patternPS0002806282IPR007087Zinc finger, C2H2
SMARTSM00355190101131IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-4128158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.05E-5132157No hitNo description
SMARTSM0035584137157IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.078157191IPR007087Zinc finger, C2H2
SMARTSM0035548164186IPR015880Zinc 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: 447 aa     Download sequence    Send to blast
MLGGSSSSSA PSSDHFHSSN PISDHANSSN KRKRRPAGTP DPDAEVVSLS PKTLLESDRY  60
VCEICNQGFQ RDQNLQMHRR RHKVPWKLLK RENPVVRKRV FVCPEPTCLH HDPCHALGDL  120
VGIKKHFRRK HSNHKQWVCD KCSKAYAVQS DYKAHLKTCG TRGHSCDCGR VFSRVESFIE  180
HQDACHMGSQ QPNGGGGGGG GLPSHPPHHQ PQQCLSRAAS SSSPSNDTTT TTTATAQPGV  240
PTPWNTGIIT LRNNNSTENN QKSASYINNV TNNIHSLDLQ LSVSPKGTDQ ENHSTHLQLS  300
IGSSDFGEKS SNNNNNHNNT ETNSTPSTIK EQASEQLRLA MAEKAYAEDA RREAKRQVEL  360
AEREFANAKR IRQQAQAELD KAQTLKDHAM KQISSTLLQI TCHACQQQFH ATKTTTTTVT  420
SLLTGHHQVE DQNSSLAESH VEDNNVK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-18135185555Zinc finger protein JACKDAW
5b3h_F9e-18135185555Zinc 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
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010687241.10.0PREDICTED: protein SHOOT GRAVITROPISM 5
SwissprotF4IPE31e-146IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A0K9S0330.0A0A0K9S033_SPIOL; Uncharacterized protein
STRINGXP_010687241.10.0(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-110C2H2-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 CuAO╬ 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]