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 KN542175.1_FGP001
Organism
Oryza longistaminata
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 C3H
Protein Properties Length: 428aa    MW: 45851.9 Da    PI: 8.5885
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN542175.1_FGP001genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.73.7e-07112133426
                        ---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                        ++Cr+f++ G C+yG++C++ H+
  KN542175.1_FGP001 112 RPCRYFLA-GDCSYGEKCRYPHS 133
                        79******.***********887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501039.8262854IPR000571Zinc finger, CCCH-type
SMARTSM003560.572953IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315108135IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.51E-5109133IPR000571Zinc finger, CCCH-type
SMARTSM003560.0012110134IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.4E-5112133IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-4112133IPR000571Zinc finger, CCCH-type
SMARTSM003207.3E-6139178IPR001680WD40 repeat
SuperFamilySSF509781.1E-31139380IPR017986WD40-repeat-containing domain
Gene3DG3DSA:2.130.10.108.5E-32141379IPR015943WD40/YVTN repeat-like-containing domain
PfamPF004001.3E-5143178IPR001680WD40 repeat
PROSITE profilePS5008214.118146187IPR001680WD40 repeat
PROSITE profilePS5029414.687146355IPR017986WD40-repeat-containing domain
PRINTSPR003202.7E-5165179IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780165179IPR019775WD40 repeat, conserved site
SMARTSM003204.9218255IPR001680WD40 repeat
SMARTSM003200.065262299IPR001680WD40 repeat
PfamPF004000.14267298IPR001680WD40 repeat
PROSITE profilePS500829.239269308IPR001680WD40 repeat
PRINTSPR003202.7E-5286300IPR020472G-protein beta WD-40 repeat
SMARTSM0032013303346IPR001680WD40 repeat
PRINTSPR003202.7E-5333347IPR020472G-protein beta WD-40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 428 aa     Download sequence    Send to blast
MDIETDGRFG NKRVHHRLGP ANGAASSSTS GKVCIHWRAG RCNRFPCPYL HSELPEATAK  60
RPSQSGGGGD VWRNPHSGGG GGRGGGGAGG PNKWGRGPGG ADGGPRHKVP DRPCRYFLAG  120
DCSYGEKCRY PHSYSMSDSI TMLTPLQGHE KVVTGIALPA GSDKLYSGSK DGTVRMWDCQ  180
TGQCAGVINM GREIGCMISE GPWLFVGIPD AVKVWNMQTQ AEMNLTGPTG QVYALAVGNE  240
LLFAATQDGR ILAWRFSAAT NGFEPAASLV GHQLAVVSLV VGAMRLYSGS MDKTIRVWAA  300
TESGSLEVTY THKEEHGALA LSGMPDAQSK PVLLCSLNDN TVRLYDLPSF SDRGRIFSKQ  360
EIRAIQVGPS GLFFTGDGTG DGTPLLAYDW RIIEWQQLIL ERARICFSPA RKSCVGCGEK  420
VWKGTAQR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A3e-141433498323Tako8
6g6n_A3e-141433498323Tako8
6g6n_B3e-141433498323Tako8
6g6n_C3e-141433498323Tako8
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
18086GGRGGGG
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN542175.1_FGP001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1023240.0AK102324.1 Oryza sativa Japonica Group cDNA clone:J033090J15, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015627227.10.0zinc finger CCCH domain-containing protein 17
SwissprotQ0DYP50.0C3H17_ORYSJ; Zinc finger CCCH domain-containing protein 17
TrEMBLA0A0E0NJ680.0A0A0E0NJ68_ORYRU; Uncharacterized protein
STRINGORUFI02G29260.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20263442
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51980.11e-142C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]