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 evm_27.model.AmTr_v1.0_scaffold00024.49
Common NameAMTR_s00024p00098860, LOC18439237
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family C2H2
Protein Properties Length: 447aa    MW: 50085.9 Da    PI: 8.4975
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00024.49genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.65.2e-067597123
                                             EEETTTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                                             y+C++C++ F r  nL+ H r+H
  evm_27.model.AmTr_v1.0_scaffold00024.49 75 YVCEICNQGFQRDQNLQMHRRRH 97
                                             9*********************9 PP
2zf-C2H215.35.7e-05152174123
                                              EEETTTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                              ++C +C+k +  +s++k H++t+
  evm_27.model.AmTr_v1.0_scaffold00024.49 152 WTCDKCSKGYAVQSDYKAHLKTC 174
                                              58*******************98 PP
3zf-C2H210.90.0014182200523
                                              TTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                                              dCg++Fsr +++  H+ t+
  evm_27.model.AmTr_v1.0_scaffold00024.49 182 DCGRVFSRVESFIEHQDTC 200
                                              9***************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.63E-57497No hitNo description
Gene3DG3DSA:3.30.160.601.8E-57497IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00527597IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.977597IPR007087Zinc finger, C2H2
PROSITE patternPS0002807797IPR007087Zinc finger, C2H2
SMARTSM00355210116146IPR015880Zinc finger, C2H2-like
SuperFamilySSF576672.63E-5147172No hitNo description
SMARTSM0035560152179IPR015880Zinc 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
MFGPPSPGST PSLGNCSTSI EHGIIASPFP PISSSFPSCL DNGGSKRKRR PAGTPDPDAE  60
VVSLSPRTLL ESDRYVCEIC NQGFQRDQNL QMHRRRHKVP WKLLKRDNSE VKKRVFVCPE  120
PSCLHHDPCH ALGDLVGIKK HFRRKHSNHK QWTCDKCSKG YAVQSDYKAH LKTCGTRGHS  180
CDCGRVFSRV ESFIEHQDTC NAGRERQDFQ TTQQVSLSRT VSSPCNSSER NMGSWATLKM  240
LGLSPSFQLP NDYHHNLELQ LLPSPNNQIQ RTPQRNQDQK AASAPTTNSN PNFIESEATR  300
LQLSIGNTGN FTSIRNSSDC ESTQFAGNTI SDRNSSDFLR LAMEERRQAE QARQEAKREM  360
ELAEREFANA KRIRQQAQAE LDKAQILKDQ ATKHINSTIL QITCQACKNH FQISDENSLA  420
MSYMSSVVTE GEGENDNRQQ GKIPSI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-18150202557Zinc finger protein JACKDAW
5b3h_F3e-18150202557Zinc 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_006849469.10.0protein indeterminate-domain 16
SwissprotF4IPE31e-149IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLW1PUR90.0W1PUR9_AMBTC; Uncharacterized protein
STRINGERN110500.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-140C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  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]