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 29983.m003121
Common NameRCOM_1172100
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family C2H2
Protein Properties Length: 437aa    MW: 48185 Da    PI: 9.0868
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29983.m003121genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.83.8e-05828323
                   ETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                   C++Cgk F r  nL+ H r H
  29983.m003121  8 CEICGKGFQRDQNLQLHRRGH 28
                   *******************88 PP
2zf-C2H213.60.000282104123
                    EEETTTTEEESSHHHHHHHHHHT CS
        zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                    +kC++C+k++  +s+ k H +t+
  29983.m003121  82 WKCEKCSKRYAVQSDWKAHSKTC 104
                    58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.7E-5528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.16E-6528No hitNo description
SMARTSM003550.076628IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.489628IPR007087Zinc finger, C2H2
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.4E-470103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.16E-677102No hitNo description
SMARTSM0035513082102IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010150Biological Processleaf senescence
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 437 aa     Download sequence    Send to blast
MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EVRKRVYVCP EKTCVHHHPS  60
RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYK CDCGTLFSRR  120
DSFITHRAFC DALAEETARV NAASNINGLA ATANNFNYHL MGAPIGPNMA QHFSSIFKPI  180
PSNNDHTMDQ TRRGLSLWMS QSHEPIAQEI HQLGSMGSSG AIFHHDPLNN SCSNSSPTDY  240
HLSWPIFGSK LSSTNAHHHE ELTSTTSSLP LNNVKEAAAA VQLVSVPSLY STQQQPNQTA  300
PSANMSATAL LQKAAQIGAT STDPTFLGSF GLKSSTNNSQ VQDQGSNKFC GLIYGSNPTI  360
TNIIASDHVE NNNDISRLNQ LQMYMPSGPV AKRQKLHSHD HDQDTSAAAA VGGQTRDFLG  420
VGVQQAICHP TSINGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-3778147372Zinc finger protein JACKDAW
5b3h_F1e-3778147372Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap29983.m003121
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002517845.20.0zinc finger protein MAGPIE
SwissprotQ9FFH31e-135IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLB9RVS60.0B9RVS6_RICCO; Nucleic acid binding protein, putative
STRINGXP_002517845.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF46262951
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G44160.11e-137C2H2-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]
  2. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]