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 GSVIVT01010283001
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family C2H2
Protein Properties Length: 349aa    MW: 39079.8 Da    PI: 10.1417
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01010283001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2171.6e-05145167123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        + C+ C+k F r  nL+ H r H
  GSVIVT01010283001 145 FICEVCNKGFQREQNLQLHRRGH 167
                        89*******************88 PP
2zf-C2H213.40.00024221243123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        +kC +C+k++  +s+ k H +t+
  GSVIVT01010283001 221 WKCDKCSKRYAVQSDWKAHSKTC 243
                        58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.5E-6144167IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.0E-8144167No hitNo description
PROSITE profilePS5015710.99145167IPR007087Zinc finger, C2H2
PfamPF121711.5E-5145167IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0052145167IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280147167IPR007087Zinc finger, C2H2
SMARTSM00355130186216IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.8E-5209242IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.0E-8216241No hitNo description
SMARTSM00355140221241IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016021Cellular Componentintegral component of membrane
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 349 aa     Download sequence    Send to blast
MGGYILGVRA YAYGLIVFFS LHLRIVAVPL DTFLLFLYGL YLKVFRVLEW RFASVEEDHK  60
DRANNCSCIK RLLTMAAPSS SAPFFGTREE EQTQMIQQQS STPTSSTAPT AAAPQKRKRN  120
LPGTPNPDAE VIALSPKTLM ATNRFICEVC NKGFQREQNL QLHRRGHNLP WKLRQKTTKE  180
VRRKVYLCPE PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK WKCDKCSKRY AVQSDWKAHS  240
KTCGTREYRC DCGTLFSRRD SFITHRAFCD ALAQESARNP PSLTNMGGHL YGTSQMTLGL  300
SQVGNANNSP SAAANLFNLG FFPNNSTIRI SLTMGTPVAK EQRCSPVA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-35217285370Zinc finger protein JACKDAW
5b3h_F3e-35217285370Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Vvi.79980.0cell culture| flower| fruit| leaf| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000305}.
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:22898356, ECO:0000269|PubMed:24821766}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00255DAPTransfer from AT2G02070Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4550950.0AM455095.1 Vitis vinifera contig VV78X055432.12, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002273614.11e-172PREDICTED: protein indeterminate-domain 5, chloroplastic
SwissprotQ8RWX71e-121IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
SwissprotQ9ZUL31e-119IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLF6HG260.0F6HG26_VITVI; Uncharacterized protein
STRINGVIT_01s0010g02090.t010.0(Vitis vinifera)
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
AT2G02070.11e-119indeterminate(ID)-domain 5
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. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  3. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]