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 RrC13539_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 HD-ZIP
Protein Properties Length: 138aa    MW: 16201.4 Da    PI: 9.9679
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC13539_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox64.61.4e-2057110457
                  -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
     Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 
                  ++++t+eq++ Le  F  ++++  e++ +LA++lgL+ rqV vWFqNrRa++k+
  RrC13539_p1  57 KRKLTDEQVNMLEMSFGDEHKLESERKDRLAAELGLDPRQVAVWFQNRRARWKN 110
                  4589************************************************95 PP
2HD-ZIP_I/II119.61.7e-3856137283
  HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLeke 83 
                  +kr+l++eqv++LE+sF  e+kLe+erK +la eLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+++ +++rLe+e
  RrC13539_p1  56 RKRKLTDEQVNMLEMSFGDEHKLESERKDRLAAELGLDPRQVAVWFQNRRARWKNKRLEEEYNKLKNSHDNVVGDKCRLESE 137
                  8******************************************************************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003892.9E-1954115IPR001356Homeobox domain
PROSITE profilePS5007116.58456111IPR001356Homeobox domain
SuperFamilySSF466895.99E-1956121IPR009057Homeodomain-like
CDDcd000861.66E-1556112No hitNo description
PfamPF000466.7E-1857110IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.2E-2158118IPR009057Homeodomain-like
PRINTSPR000314.9E-68291IPR000047Helix-turn-helix motif
PROSITE patternPS00027086109IPR017970Homeobox, conserved site
PRINTSPR000314.9E-691107IPR000047Helix-turn-helix motif
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 138 aa     Download sequence    Send to blast
MNHTMDDHNL AFISQLYPDV YTQILPQQGA VKPPKRRRKK SKGAVATGDV SNCFFRKRKL  60
TDEQVNMLEM SFGDEHKLES ERKDRLAAEL GLDPRQVAVW FQNRRARWKN KRLEEEYNKL  120
KNSHDNVVGD KCRLESEV
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13758RKKSKGAVATGDVSNCFFRKRK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1895491e-124AC189549.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH005C21, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018481857.11e-98PREDICTED: homeobox-leucine zipper protein ATHB-40-like isoform X2
SwissprotO232085e-83ATB40_ARATH; Homeobox-leucine zipper protein ATHB-40
TrEMBLA0A0D3A1G97e-89A0A0D3A1G9_BRAOL; Uncharacterized protein
STRINGBo1g005450.11e-89(Brassica oleracea)
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
AT4G36740.12e-77homeobox 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]