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 484116
Common NameARALYDRAFT_484116
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 446aa    MW: 49966.1 Da    PI: 8.9054
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
484116genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.51.1e-057395123
             EEETTTTEEESSHHHHHHHHHHT CS
  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
             y C++C++ F r  nL+ H r+H
   484116 73 YICEICNQGFQRDQNLQMHRRRH 95
             89********************9 PP
2zf-C2H214.50.0001151173123
              EEETTTTEEESSHHHHHHHHHHT CS
  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
              ++C+ C+k +  +s++k H++t+
   484116 151 WVCERCSKGYAVQSDYKAHLKTC 173
              58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.78E-57295No hitNo description
Gene3DG3DSA:3.30.160.601.3E-57295IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00657395IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.8667395IPR007087Zinc finger, C2H2
PROSITE patternPS0002807595IPR007087Zinc finger, C2H2
SMARTSM00355160115145IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.5E-4142172IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.78E-5146171No hitNo description
SMARTSM00355100151178IPR015880Zinc 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: 446 aa     Download sequence    Send to blast
MRTDQVMLSN KNTNTCCVVS SSSSDPFLSS SENGVTTTNT STQKRKRRPA GTPDPDAEVV  60
SLSPRTLLES DRYICEICNQ GFQRDQNLQM HRRRHKVPWK LLKRDNNIEV KKRVYVCPEP  120
TCLHHDPCHA LGDLVGIKKH FRRKHSNHKQ WVCERCSKGY AVQSDYKAHL KTCGTRGHSC  180
DCGRVFSRVE SFIEHQDNCS VRRVNREPPL PPQTAVAVPA CSSRTASTVS TPSSETNYGG  240
AVAVATPLPL EGRPIHQRIS SSILTNSSNN LNLELQLLPL SSNQNPNQEN QQQNVKEPSH  300
HHNQNHDTTN LNLSIAPSSS YQHYNNFDRI KEIMASEQIM QMAMKEKSYA EEAKREAKRQ  360
REIAETEFAN AKKIRQKAQA ELERAKFLKE QSMKKISSTI MQVTCQTCKG QFQAVAVPAA  420
AADETSLVVS YMSSANTDGE LENGF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-17149201557Zinc finger protein JACKDAW
5b3h_F1e-17149201557Zinc 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
PlantRegMap484116
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
GenBankAK2267030.0AK226703.1 Arabidopsis thaliana mRNA for putative C2H2-type zinc finger protein, complete cds, clone: RAFL07-61-I21.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002875101.10.0protein SHOOT GRAVITROPISM 5
SwissprotF4IPE30.0IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLD7LPX50.0D7LPX5_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.5__108__AT2G01940.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69328131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.10.0C2H2-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 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]