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 Carubv10017209m
Common NameCARUB_v10017209mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C2H2
Protein Properties Length: 459aa    MW: 48469.8 Da    PI: 10.0274
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10017209mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.3e-056789123
                     EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                     ++C++C+k F r  nL+ H r H
  Carubv10017209m 67 FVCEICNKGFQRDQNLQLHRRGH 89
                     89*******************88 PP
2zf-C2H211.40.001143165123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      +kC +C+k +  +s+ k H + +
  Carubv10017209m 143 WKCDKCSKKYAVQSDWKAHSKIC 165
                      58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576676.1E-76689No hitNo description
Gene3DG3DSA:3.30.160.601.5E-56689IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121717.2E-56789IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0176789IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9496789IPR007087Zinc finger, C2H2
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SMARTSM00355270108138IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.2E-4131164IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.1E-7138163No hitNo description
SMARTSM00355150143163IPR015880Zinc 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: 459 aa     Download sequence    Send to blast
MPIDLDNSST VSGEASVSVS STGNQNPLPN PAVKPTGKKK RNLPGMPDPE SEVIALSPKT  60
LLATNRFVCE ICNKGFQRDQ NLQLHRRGHN LPWKLRQKSS KEVRKKVYVC PELSCVHHDP  120
SRALGDLTGI KKHFCRKHGE KKWKCDKCSK KYAVQSDWKA HSKICGTKEY KCDCGTLFSR  180
RDSFITHRAF CDALAEESAR GSTTHHSHSK KQSPEILTRK KPVPDPNPAP MDTESAKIKS  240
SSASTIKQSE SPKTPPDIVQ EAPKPTSLNV TRNGVFAGLF ESSSASPSIY TTSSSSQSLF  300
APSSSIEPIS LGLSTSHGSS FLGSTLFQAH PAMSATALLQ KAAQMGAASS GGSLLRGLGI  360
VSSTSSSMDA IVPQGLGLGL PCGGESSSGL KELMMGNSSV FGPKQTTLDF LGLGRAVGNG  420
NGSSNGLSAL VGGSSGIDMA STFGSGEFSG KDISRRKS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-35139203367Zinc finger protein JACKDAW
5b3h_F3e-35139203367Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
193105KLRQKSSKEVRKK
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269|PubMed:25035403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00403DAPTransfer from AT3G50700Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10017209m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2269330.0AK226933.1 Arabidopsis thaliana mRNA for zinc finger protein, complete cds, clone: RAFL09-26-M08.
GenBankBT0149470.0BT014947.1 Arabidopsis thaliana At3g50700 gene, complete cds.
GenBankBT0158360.0BT015836.1 Arabidopsis thaliana At3g50700 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006291095.10.0protein indeterminate-domain 2
RefseqXP_023638354.10.0protein indeterminate-domain 2
SwissprotQ9SCQ60.0IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBLR0HJI70.0R0HJI7_9BRAS; Uncharacterized protein
STRINGXP_006291095.10.0(Capsella rubella)
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
AT3G50700.10.0indeterminate(ID)-domain 2
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]
  3. Khare D, et al.
    Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana.
    New Phytol., 2017. 213(3): p. 1257-1273
    [PMID:27768815]