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 LOC_Os09g38340.1
Common NameLOC9272621, Os09g0555700, OSNPB_090555700
Organism
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; Oryza sativa
Family C2H2
Protein Properties Length: 536aa    MW: 54893.1 Da    PI: 9.4147
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os09g38340.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.3e-057698123
                      EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                      ++C+ C+k F r  nL+ H r H
  LOC_Os09g38340.1 76 FVCEVCNKGFQREQNLQLHRRGH 98
                      89*******************88 PP

2zf-C2H212.50.00043152174123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C +C+k++  +s+ k H +t+
  LOC_Os09g38340.1 152 WRCDKCSKRYAVQSDWKAHSKTC 174
                       58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.607.3E-67598IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.04E-77598No hitNo description
PfamPF121713.4E-57698IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015711.0947698IPR007087Zinc finger, C2H2
SMARTSM003550.00417698IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807898IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.0E-4140173IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.04E-7147172No hitNo description
SMARTSM00355150152172IPR015880Zinc 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000032anatomytetrad of microspores
PO:0001029developmental stageE tetrad stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 536 aa     Download sequence    Send to blast
MAAASSAPFF GLGDTQMPPP QNPTNPALHH HPNPSPAPVA AAAPAPKKKR NQPGNPNPDA  60
EVIALSPRTL MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNPK EARRRVYLCP  120
EPSCVHHDPS RALGDLTGIK KHYCRKHGEK KWRCDKCSKR YAVQSDWKAH SKTCGTREYR  180
CDCGTLFSRR DSFITHRAFC DALAQENARM PPIGAGVYGG AGNMTLGLTG MAAPQLPAGF  240
PDQAGQPSAS AGDVLRLGGG SNGASQFDHL MASSSGSSMF RSQGSSSSSF YLANGAAHHA  300
PAQDFGPEDG QSQAGQGSLL HGKPAAFHDL MQLPVQHQQS GNGNLLNLGF FSGSNGGVDQ  360
FNGGAGNGGQ GSIVTSSGLA GNHGGGGGGF PSLYNSSEPA GTLPQMSATA LLQKAAQMGA  420
TTSSYNAGGA GGASSLLRGA SSHGISVGEG PANERSSYQN LIMGSMASGG GGAGFAGSFS  480
GASGFGGAVD DGKLSTRDFL GVGVVQGISG SAAMGPPRHG AAGLHVGSLD PANMN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-35148210365Zinc finger protein JACKDAW
5b3h_F2e-35148210365Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.615360.0callus| flower| leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1166323790.0
Expression AtlasB7ERE7-
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
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os09g38340.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs09g38340
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-124IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLB7ERE70.0B7ERE7_ORYSJ; Os09g0555700 protein
STRINGOS09T0555700-020.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14580.21e-113C2H2-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]