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 RrC983_p4
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 C2H2
Protein Properties Length: 141aa    MW: 16546.2 Da    PI: 9.6464
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC983_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.33.1e-063050323
               ETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
               C+ C+k F+r  nL+ H r+H
  RrC983_p4 30 CEVCNKGFKREQNLQLHGRVH 50
               *****************9998 PP
2zf-C2H215.45.4e-05104126123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+ks+  +++ k+H + +
  RrC983_p4 104 WKCGKCPKSYALQYDWKTHSKIC 126
                58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.39E-62750No hitNo description
Gene3DG3DSA:3.30.160.609.8E-72750IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.262850IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.2612850IPR007087Zinc finger, C2H2
PfamPF128743.7E-43050No hitNo description
PROSITE patternPS0002803050IPR007087Zinc finger, C2H2
SMARTSM00355586999IPR015880Zinc finger, C2H2-like
SuperFamilySSF576673.39E-699124No hitNo description
SMARTSM00355210104124IPR015880Zinc 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: 141 aa     Download sequence    Send to blast
MYFIQHFTNP DAEVIALSPK TIMTTNRFLC EVCNKGFKRE QNLQLHGRVH DLPWNLKQKS  60
EKEVRSKVYI CPEPTCVHHD PSRALGDLTG IKKHYYRKHC EKKWKCGKCP KSYALQYDWK  120
THSKICGTKV CRSDCGTIFN R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-12101141444Zinc finger protein JACKDAW
5b3h_F3e-12101141444Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000305}.
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}.
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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013740255.17e-81protein indeterminate-domain 6, chloroplastic-like
RefseqXP_018474959.13e-85PREDICTED: protein indeterminate-domain 6, chloroplastic-like
SwissprotQ8GYC12e-79IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
SwissprotQ8RWX71e-79IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBLA0A3N6RXQ51e-80A0A3N6RXQ5_BRACR; Uncharacterized protein
STRINGBra023223.1-P8e-80(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14580.25e-82C2H2-like zinc finger 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. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  3. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]