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 ONIVA09G20340.1
Organism
Oryza nivara
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C2H2
Protein Properties Length: 537aa    MW: 55095.3 Da    PI: 9.5117
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA09G20340.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.3e-0578100123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      ++C+ C+k F r  nL+ H r H
  ONIVA09G20340.1  78 FVCEVCNKGFQREQNLQLHRRGH 100
                      89*******************88 PP
2zf-C2H212.50.00043154176123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      ++C +C+k++  +s+ k H +t+
  ONIVA09G20340.1 154 WRCDKCSKRYAVQSDWKAHSKTC 176
                      58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576678.02E-777100No hitNo description
Gene3DG3DSA:3.30.160.607.3E-677100IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121713.4E-578100IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.004178100IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.09478100IPR007087Zinc finger, C2H2
PROSITE patternPS00028080100IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.0E-4142175IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.02E-7149174No hitNo description
SMARTSM00355150154174IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 537 aa     Download sequence    Send to blast
MAAASSAPFF GLGDTQMPPP QNPTNPALHH HPNPSPAPVA AAAPAPKKKR NQPGNPSKYP  60
DAEVIALSPR TLMATNRFVC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKN PKEARRRVYL  120
CPEPSCVHHD PSRALGDLTG IKKHYCRKHG EKKWRCDKCS KRYAVQSDWK AHSKTCGTRE  180
YRCDCGTLFS RRDSFITHRA FCDALAQENA RIPPIGAGVY GGAGNMTLGL TGMAAPQLPA  240
GFPDQAGQPS ASAGDVLRLG GGSNGASQFD HLMASSSGSS MFRSQGSSSS SFYLANGAAH  300
HAPAQDFGPE DGQSQAGQGS LLHGKPAAFH DLMQLPVQHQ QSGNGNLLNL GFFSGSNGGV  360
DQFNGGAGNG GQGSIVTSSG LAGNHGGGGG GFPSLYNSSE PAGTLPQMSA TALLQKAAQM  420
GATTSSYNAG GAGGASSLLR GASSHGISAG EGPANERASY QNLIMGSMAS GGGGAGFAGS  480
FSGASGFGGA VDDGKLSTRD FLGVGVVQGI SGSAAMGPPR HGAAGLHVGS LDPANMN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-35150212365Zinc finger protein JACKDAW
5b3h_F9e-35150212365Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
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
GenBankAK1011810.0AK101181.1 Oryza sativa Japonica Group cDNA clone:J033029F02, full insert sequence.
GenBankAK1019500.0AK101950.1 Oryza sativa Japonica Group cDNA clone:J033075E02, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015612461.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_015612462.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_015612463.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_015612465.10.0protein indeterminate-domain 5, chloroplastic
RefseqXP_015612466.10.0protein indeterminate-domain 5, chloroplastic
SwissprotQ9ZUL31e-121IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A0E0INH00.0A0A0E0INH0_ORYNI; Uncharacterized protein
STRINGONIVA09G20340.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP17333798
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14580.21e-110C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]