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 Carubv10006436m
Common NameCARUB_v10006436mg
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 HD-ZIP
Protein Properties Length: 219aa    MW: 25175 Da    PI: 5.069
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10006436mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.66e-2057110457
                      -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
         Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 
                      ++++t+eq++ Le  F  ++++  e++ +LA+ lgL+ rqV vWFqNrRa++k+
  Carubv10006436m  57 KRKLTDEQVNMLEMSFGDEHKLESERKDRLAADLGLDPRQVAVWFQNRRARWKN 110
                      4589************************************************95 PP
2HD-ZIP_I/II124.74.2e-4056146292
      HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                      +kr+l++eqv++LE+sF  e+kLe+erK +la +Lgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+++ +++rLe+ev +L+e+l 
  Carubv10006436m  56 RKRKLTDEQVNMLEMSFGDEHKLESERKDRLAADLGLDPRQVAVWFQNRRARWKNKRLEEEYNKLKNSHDNVVVDKCRLESEVIKLKEQLY 146
                      8***************************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003892.6E-1954115IPR001356Homeobox domain
PROSITE profilePS5007116.3956111IPR001356Homeobox domain
CDDcd000864.60E-1656112No hitNo description
PfamPF000462.8E-1757110IPR001356Homeobox domain
SuperFamilySSF466895.13E-1857121IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.2E-2058118IPR009057Homeodomain-like
PRINTSPR000311.7E-58291IPR000047Helix-turn-helix motif
PROSITE patternPS00027086109IPR017970Homeobox, conserved site
PRINTSPR000311.7E-591107IPR000047Helix-turn-helix motif
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 219 aa     Download sequence    Send to blast
MNHTVDDQNM AFISQLYPDV YTQIVPQPGD VKQPKRRRKK SKGALGSGDG SNCLFRKRKL  60
TDEQVNMLEM SFGDEHKLES ERKDRLAADL GLDPRQVAVW FQNRRARWKN KRLEEEYNKL  120
KNSHDNVVVD KCRLESEVIK LKEQLYDAER EIQKLAERAE GGSSNSPISS SVSIEANETP  180
FFGDYTVGDD GHDDYDNMFY PLPENSYIDG AEWMSQYI*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13758RKKSKGALGSGDGSNCLFRKRK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00473DAPTransfer from AT4G36740Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10006436m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (ABA) and by salt stress. {ECO:0000269|PubMed:16055682}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL1615891e-118AL161589.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 85.
GenBankAL1615901e-118AL161590.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 86.
GenBankCP0026871e-118CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankZ997081e-118Z99708.1 Arabidopsis thaliana DNA chromosome 4, ESSA I AP2 contig fragment No. 2.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006285103.11e-164homeobox-leucine zipper protein ATHB-40
SwissprotO232081e-135ATB40_ARATH; Homeobox-leucine zipper protein ATHB-40
TrEMBLR0F8R41e-162R0F8R4_9BRAS; Uncharacterized protein
STRINGXP_006285103.11e-163(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM22082677
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36740.11e-136homeobox protein 40
Publications ? help Back to Top
  1. González-Grandío E, et al.
    Abscisic acid signaling is controlled by a BRANCHED1/HD-ZIP I cascade in Arabidopsis axillary buds.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(2): p. E245-E254
    [PMID:28028241]