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 Carubv10025041m
Common NameCARUB_v10025041mg
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 bHLH
Protein Properties Length: 306aa    MW: 34077.9 Da    PI: 9.6094
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10025041mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH40.35.8e-13125172355
                      HHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
              HLH   3 rahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                      + h  +Er+RR+++ ++f  L  l+P +     kK++Ka++L  A+++Ik+Lq
  Carubv10025041m 125 QEHILAERKRREKLTQRFVALSALVPGL-----KKMDKASVLGDAIKHIKHLQ 172
                      56999***********************.....9******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.713122171IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000107.5E-11125172IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.88E-17126189IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.107.7E-17126186IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.54E-12127176No hitNo description
SMARTSM003533.5E-15128177IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 306 aa     Download sequence    Send to blast
MNSLVGDFPQ SLSSLDDINN SYNFDASCNN DFVEEKPSKI LKTTHISPKI HPFSSSNTPL  60
STNQPSSRIL SFEKTGLKVM NHNSPNLIFS PKEEETGLPD QRKSKLVIRG TKRAQTSTRS  120
QANAQEHILA ERKRREKLTQ RFVALSALVP GLKKMDKASV LGDAIKHIKH LQEIVKEYEE  180
QKQERTMESI ILVKKSQLVL DENHQPSSSS SSDGNRDCSS SNLPEIEVRV SGNDVLIKIL  240
CEKQKGNVIK IMGEIEKLGL LITNSNVLPF GPTFDISIIA QKNRNFDIKI EDLVKNLSCG  300
ISKLK*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1130135ERKRRE
2131136RKRREK
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00273DAPTransfer from AT2G22750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10025041m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cold treatment. {ECO:0000269|PubMed:12679534}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ4465490.0DQ446549.1 Arabidopsis thaliana clone pENTR221-At2g22750 basic helix-loop-helix family protein (At2g22750) mRNA, complete cds.
GenBankDQ6530150.0DQ653015.1 Arabidopsis thaliana clone 0000017319_0000012121 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006295910.20.0transcription factor bHLH18 isoform X1
SwissprotQ1PF171e-162BH018_ARATH; Transcription factor bHLH18
TrEMBLR0HXJ30.0R0HXJ3_9BRAS; Uncharacterized protein
STRINGXP_006295910.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49227146
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22750.21e-163bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]