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 RrC211_p3
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C3H
Protein Properties Length: 400aa    MW: 44217.3 Da    PI: 7.7441
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC211_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH322.1e-10117140326
                S---SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                 e C+ f+r G C++Gd C FaHg
  RrC211_p3 117 AEVCPEFRRDGDCSRGDDCEFAHG 140
                589********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902294.08E-6113144IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.929114142IPR000571Zinc finger, CCCH-type
SMARTSM003566.6E-6114141IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.2E-6115142IPR000571Zinc finger, CCCH-type
PfamPF006423.8E-8117140IPR000571Zinc finger, CCCH-type
SMARTSM003562.5150173IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010187Biological Processnegative regulation of seed germination
GO:0005634Cellular Componentnucleus
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 400 aa     Download sequence    Send to blast
MDVVRPTVDI PPRKLLLASK SFPAESSPRS SPRKHNWNNK MVTSEHEEDN EDTNKETKEY  60
CYDSDTDDPY ASEHFRIFEF KIRRCTRSRS HDWTDCPFAH PGEKARRRDP RRFQYSAEVC  120
PEFRRDGDCS RGDDCEFAHG VFECWLHPIR YRTEACKDGK HCKRKVCFFA HSPRQLRVLP  180
PENVSGGGSS SACPAAKSPC CMFCSSSPTS TLLGNLSHLS RSPSLSPPLS PAHKAAAFSR  240
LRNRAASAVS EAVSAAAASG SVNYEDVLNE LVNSLDTINL AEALHVSSSS PVTTPVSAAA  300
AFASSCGLGN PRLHIQQQQS SPLQFSLSPS TPSYLTNSLS PSTPSYLTNS PRANLFGRDF  360
TPRRREMNDI KTMAAVRDKT SFEDGSCCDP DLGWVNDLLT
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269|PubMed:18487351}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018447345.10.0PREDICTED: zinc finger CCCH domain-containing protein 2-like
SwissprotQ9ZWA10.0C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBLM4EP220.0M4EP22_BRARP; Uncharacterized protein
STRINGBra030542.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM29872766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03790.11e-156C3H family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Chang G, et al.
    AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana.
    Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238
    [PMID:29723526]