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 676758260
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family C2H2
Protein Properties Length: 446aa    MW: 48632.2 Da    PI: 8.2558
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676758260genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.13.1e-0586108123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                ++C  C+k F r  nL+ H r H
  676758260  86 FVCDVCKKGFQREQNLQLHRRGH 108
                89*******************88 PP
2zf-C2H213.60.0002162184123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+k++  +s+ k H +t+
  676758260 162 WKCEKCSKRYAVQSDWKAHSKTC 184
                58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.24E-785108No hitNo description
Gene3DG3DSA:3.30.160.605.9E-586108IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.01186108IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.7286108IPR007087Zinc finger, C2H2
PROSITE patternPS00028088108IPR007087Zinc finger, C2H2
SMARTSM00355110127157IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.9E-5150183IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.24E-7157182No hitNo description
SMARTSM00355130162182IPR015880Zinc 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: 446 aa     Download sequence    Send to blast
MAEEWIPSSE FMFLLSLLLG GYAQLGFLED YYSLPRKEED LKMSSSSYNT SVVPSSSSSA  60
QPFFITDPDA EVVALSPKTL MATNRFVCDV CKKGFQREQN LQLHRRGHNL PWKLKQKSTK  120
EVKRKVYLCP EPTCVHHDPS RALGDLTGIK KHYYRKHGEK KWKCEKCSKR YAVQSDWKAH  180
SKTCGTKEYR CDCGTIFSSY NLNNASSENS RDFAPQTSNP NFLIQCSSSQ GMLTGANNND  240
LMNQGLIQFD PVNSINLKSS TTNNSFFNLG FFQENTKNSE TSLPSLYSTD ALIQHREEGL  300
NAGSNVSATA LLQKATQMGS ITSNDSSVLF RGLASSSNSS TVVVNDFGGG QIMGNDDNGN  360
LQGLMNSLAA VNGGGAGGSG GNIFDVHFGN NGNMSGSDKL TLDFLGVGGM VRNVNRGGGG  420
RGRGRGDVSL DGELKFQEQN HPFGRA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-20158198343Zinc finger protein JACKDAW
5b3h_F1e-20158198343Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1415425RGGGGRGRGRG
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:24821766, ECO:0000305|PubMed:19726569}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00256DAPTransfer from AT2G02080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap676758260
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFJ3864030.0FJ386403.1 Thellungiella halophila putative inositol phosphatase gene, partial cds; cyclin-like protein, putative microtubule-associated protein, putative C2H2 zinc finger protein, brassinosteroid receptor-like protein, putative transmembrane transporter, salt overly sensitive 1-like protein, valyl-tRNA synthetase-like protein, putative glutamate decarboxylase, putative peptide transporter, putative F-box protein, putative nitrate transporter, putative NADH dehydrogenase, putative Myb DNA binding proteins, putative C2H2 zinc finger proteins, putative F-box protein, SWI/SNF helicase-like protein, defensin-like proteins, and putative PPR repeat protein genes, complete cds; and unknown genes.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006290880.10.0protein indeterminate-domain 4, chloroplastic
RefseqXP_023638726.10.0protein indeterminate-domain 4, chloroplastic
RefseqXP_023638727.10.0protein indeterminate-domain 4, chloroplastic
SwissprotQ8GYC10.0IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLR0FMS20.0R0FMS2_9BRAS; Uncharacterized protein
STRINGXP_006290879.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM36781759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.11e-168indeterminate(ID)-domain 4
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]