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 Rsa1.0_00176.1_g00016.1
Organism
Raphanus sativus
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: 224aa    MW: 25906.1 Da    PI: 7.494
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00176.1_g00016.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.65.7e-2067120457
                              -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
                 Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 
                              ++++t+eq + Le  Fe+++++   ++e++A++lgL+ rqV vWFqNrRa++k+
  Rsa1.0_00176.1_g00016.1  67 KRKLTDEQMNMLEYSFENEHKLESGRKEKIARELGLDPRQVAVWFQNRRARWKN 120
                              4589************************************************95 PP
2HD-ZIP_I/II121.34.9e-3966157293
              HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeL 87 
                              +kr+l++eq+++LE sFe+e+kLe+ rK+++areLgl+prqvavWFqnrRAR+k+k+lE++y++Lk++yd++   +++Le++v +L
  Rsa1.0_00176.1_g00016.1  66 RKRKLTDEQMNMLEYSFENEHKLESGRKEKIARELGLDPRQVAVWFQNRRARWKNKKLEEEYAKLKSQYDTILLGQCHLESQVLKL 151
                              8************************************************************************************* PP

              HD-ZIP_I/II  88 reelke 93 
                              +e+l+e
  Rsa1.0_00176.1_g00016.1 152 TEQLSE 157
                              ***986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007116.76361121IPR001356Homeobox domain
SuperFamilySSF466893.67E-1862123IPR009057Homeodomain-like
SMARTSM003893.4E-1764125IPR001356Homeobox domain
CDDcd000866.37E-1666122No hitNo description
PfamPF000463.3E-1767120IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.4E-2071121IPR009057Homeodomain-like
PRINTSPR000311.0E-592101IPR000047Helix-turn-helix motif
PROSITE patternPS00027096119IPR017970Homeobox, conserved site
PRINTSPR000311.0E-5101117IPR000047Helix-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: 224 aa     Download sequence    Send to blast
MDQAVLGSQA YLYATQTHNQ CIIVNQIDGA PSGDGSKPVK RRRKRRSKGS SATNGEDVAA  60
IGRMLRKRKL TDEQMNMLEY SFENEHKLES GRKEKIAREL GLDPRQVAVW FQNRRARWKN  120
KKLEEEYAKL KSQYDTILLG QCHLESQVLK LTEQLSEAQS EIRKLSERLV QETSTNSSSS  180
SLSVEANYTP IEFEFGPDTN YNIPFYMMDN DYLQNMEYWD GLYV
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13945KRRRKRR
26469LRKRKL
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may play a regulatory role in auxin/cytokinin signaling during root development. {ECO:0000269|PubMed:15567172}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00591DAPTransfer from AT5G66700Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00176.1_g00016.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (ABA), by salt stress, by indole-3-acetic acid (IAA) and during darkness conditions. Down-regulated by cytokinin. {ECO:0000269|PubMed:15567172, 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
GenBankAC1892250.0AC189225.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB011P07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018455188.11e-168PREDICTED: homeobox-leucine zipper protein ATHB-53-like
SwissprotQ9LVR01e-109ATB53_ARATH; Homeobox-leucine zipper protein ATHB-53
TrEMBLA0A078JXM21e-131A0A078JXM2_BRANA; BnaA07g37510D protein
TrEMBLM4D6I41e-131M4D6I4_BRARP; Uncharacterized protein
STRINGBra012093.1-P1e-132(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM126021731
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G66700.11e-107homeobox 53
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]