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 Carubv10026275m
Common NameCARUB_v10026275mg
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: 500aa    MW: 52287.9 Da    PI: 8.9277
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10026275mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.4e-056183123
                     EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                     ++C++C+k F r  nL+ H r H
  Carubv10026275m 61 FVCEICNKGFQRDQNLQLHRRGH 83
                     89*******************88 PP
2zf-C2H211.90.0007137159123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      +kC++C+k +  +s+ k H + +
  Carubv10026275m 137 WKCEKCSKKYAVQSDWKAHSKIC 159
                      58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.48E-66083No hitNo description
Gene3DG3DSA:3.30.160.601.6E-56083IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121717.9E-56183IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0176183IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9496183IPR007087Zinc finger, C2H2
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
SMARTSM0035584102132IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.4E-4125158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.48E-6132157No hitNo description
SMARTSM00355140137157IPR015880Zinc 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: 500 aa     Download sequence    Send to blast
MPVDLDNSST VSGDASVSST GNQNQTPKSV GKKKRNLPGM PDPDAEVIAL SPKTLMATNR  60
FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QRSSKEVKKK VYVCPVAGCV HHDPSRALGD  120
LTGIKKHFCR KHGEKKWKCE KCSKKYAVQS DWKAHSKICG TKEYKCDCGT LFSRRDSFIT  180
HRAFCDALAE ESAKNHTQSK KLYPETVTRK NPEPEQKSPA VVESPPSLQA SSPPSVAIAP  240
APAISVESEP AKVISSSVLP NQDSPESPGS NPPEVIVEEA SRTIGFNVSS SGLSNDHSNN  300
NGAYSGLFVS STASPSLYAS STASPSLYAP SSSIEPISLC LSTNPSLFGR TIQDPPHFLT  360
PLPPQPAMSA TALLQKAAQM GSTGSGGSLL RGLGIVSTTS SSMELSNNDA LSLAPGLGLG  420
LPCSSGGSGS GLKELMMGNS SVFGPKQTTL DFLGLGRAVG NGSNPGGGLS ALLTSIGGSG  480
GIDVFGSGEF SGKDIGRSS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-34133199369Zinc finger protein JACKDAW
5b3h_F3e-34133199369Zinc finger protein JACKDAW
Search in ModeBase
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10026275m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0998590.0AY099859.1 Arabidopsis thaliana zinc finger protein (At5g66730) mRNA, complete cds.
GenBankBT0003100.0BT000310.1 Arabidopsis thaliana zinc finger protein (At5g66730) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006280348.10.0protein indeterminate-domain 1
SwissprotQ9LVQ70.0IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLR0EWK50.0R0EWK5_9BRAS; Uncharacterized protein
STRINGXP_006280348.10.0(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
AT5G66730.10.0C2H2-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]