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 RrC131_p10
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: 217aa    MW: 25241.3 Da    PI: 5.4872
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC131_p10genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox63.53e-2057110457
                 -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
    Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 
                 ++++t+eq++ Le  F  ++++  e++ +LA++lgL+ rqV vWFqNrRa++k+
  RrC131_p10  57 KRKLTDEQVNMLEMSFGDEHKLESERKDKLAAELGLDPRQVAVWFQNRRARWKN 110
                 4589************************************************95 PP
2HD-ZIP_I/II122.42.2e-3956146292
  HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                  +kr+l++eqv++LE+sF  e+kLe+erK +la eLgl+prqvavWFqnrRAR+k+k+lE++y +Lk+++d+++ +++rLe+e  +L+e+l 
   RrC131_p10  56 RKRKLTDEQVNMLEMSFGDEHKLESERKDKLAAELGLDPRQVAVWFQNRRARWKNKRLEEEYIKLKNSHDSVVVDKCRLESELLQLKEQLY 146
                  8***************************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003897.4E-2054115IPR001356Homeobox domain
PROSITE profilePS5007116.60156111IPR001356Homeobox domain
CDDcd000864.84E-1656112No hitNo description
SuperFamilySSF466891.11E-1757116IPR009057Homeodomain-like
PfamPF000461.7E-1757110IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.7E-2158117IPR009057Homeodomain-like
PRINTSPR000316.0E-68291IPR000047Helix-turn-helix motif
PROSITE patternPS00027086109IPR017970Homeobox, conserved site
PRINTSPR000316.0E-691107IPR000047Helix-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:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 217 aa     Download sequence    Send to blast
MNHTVDDQNM AFISQLYPDV YTRMVPQQGE VKPPRRRRKK SKAPAAAGDG SNCLFRKRKL  60
TDEQVNMLEM SFGDEHKLES ERKDKLAAEL GLDPRQVAVW FQNRRARWKN KRLEEEYIKL  120
KNSHDSVVVD KCRLESELLQ LKEQLYDAER EIQRLAERVE RGSSNSPVSS SVSVEANETP  180
FFGDYKVGDD GDDYNNLFYP VPENIYTDGA EWMNLYI
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13758RKKSKAPAAAGDGSNCLFRKRK
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
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
GenBankAC1895491e-117AC189549.2 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_018469087.11e-160PREDICTED: homeobox-leucine zipper protein ATHB-40
SwissprotO232081e-129ATB40_ARATH; Homeobox-leucine zipper protein ATHB-40
TrEMBLA0A398ANQ71e-141A0A398ANQ7_BRACM; Uncharacterized protein
STRINGBo1g005450.11e-141(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
AT4G36740.11e-98homeobox 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]