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 RrC18685_p1
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: 563aa    MW: 58879.3 Da    PI: 8.6779
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC18685_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2171.6e-055981123
                 EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                 ++C++C+k F r  nL+ H r H
  RrC18685_p1 59 FVCEICNKGFQRDQNLQLHRRGH 81
                 89*******************88 PP
2zf-C2H2130.0003136158123
                  EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                  ykC +C+k +  +s+ k H + +
  RrC18685_p1 136 YKCDKCSKKYAVQSDWKAHSKIC 158
                  9******************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.21E-75881No hitNo description
Gene3DG3DSA:3.30.160.601.9E-55881IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0175981IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9495981IPR007087Zinc finger, C2H2
PROSITE patternPS0002806181IPR007087Zinc finger, C2H2
SMARTSM00355230101131IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.7E-4124157IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.21E-7131156No hitNo description
SMARTSM0035580136156IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009937Biological Processregulation of gibberellic acid mediated signaling pathway
GO:0010029Biological Processregulation of seed germination
GO:0010431Biological Processseed maturation
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 563 aa     Download sequence    Send to blast
MAPVELENSS TVSGDASGVS STGNLNPPPK KKRNLPGMPD PGAEVIALSP KTLMATNRFV  60
CEICNKGFQR DQNLQLHRRG HNLPWKLRQR SAKDAVRKKV YVCPVSACVH HDPSRALGDL  120
TGIKKHFCRK HGEKKYKCDK CSKKYAVQSD WKAHSKICGT KEYRCDCGTL FSRKDSFITH  180
RAFCDVLAEE SAKNQTNKLY PQPELKSPPA AAAPPTSPPS VAPPNVSAET EPVKIASPSV  240
RSSSESPNPL EVIMEEAPRT IGFNVTSSVI SDDDRSGNNN CTPRTIGFNV TSSGLSGDHT  300
SNNNNNNGIY AGLFSSSTSS PSLYASSTPS TSLFAPPSSS MEPISLCLST NPSLYVGPTT  360
IQDPHPPPHF LTPLSLPPPQ PAMSATALLQ KAAQMGSTGS GGSLLRGLGI VSSTSSSMEL  420
SSHDLGLGLL PPCSSGGSGG SGLKELMMGN SCVFGPKQTT LDFLGLGRAV GNGSSNPVGG  480
GLSALLTSIG GGGGMDVFGT AGEFPGKDIG RSFESSSSSS SSVNFNHNFW FLLSAMMKQE  540
AIGVAGGVGG WAEAGVNAGL FSR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-32132193364Zinc finger protein JACKDAW
5b3h_F2e-32132193364Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
18598KLRQRSAKDAVRKK
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00592DAPTransfer from AT5G66730Download
Motif logo
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_018459862.10.0PREDICTED: protein indeterminate-domain 1-like
SwissprotQ9LVQ70.0IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLR0EWK50.0R0EWK5_9BRAS; Uncharacterized protein
STRINGCagra.2007s0026.1.p0.0(Capsella grandiflora)
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
AT5G66730.11e-163C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]