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_29491.1_g00001.1
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: 147aa    MW: 16997.3 Da    PI: 10.1309
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_29491.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.75.5e-2067120457
                              -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
                 Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 
                              ++++t++q++ Le  Fe+++++   ++e++A +lgL+ rqV vWFqNrRa++k+
  Rsa1.0_29491.1_g00001.1  67 KRKLTDQQVNMLEFSFENEHKLESGRKEKIAGELGLDPRQVAVWFQNRRARWKN 120
                              4589************************************************95 PP
2HD-ZIP_I/II112.23.4e-3666146282
              HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLek 82 
                              +kr+l+++qv++LE sFe+e+kLe+ rK+++a eLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+++  +++Le+
  Rsa1.0_29491.1_g00001.1  66 RKRKLTDQQVNMLEFSFENEHKLESGRKEKIAGELGLDPRQVAVWFQNRRARWKNKKLEEEYAKLKSQHDTVVLGQCQLES 146
                              8**************************************************************************999986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003894.9E-1764125IPR001356Homeobox domain
SuperFamilySSF466894.18E-1865123IPR009057Homeodomain-like
PROSITE profilePS5007116.0566121IPR001356Homeobox domain
CDDcd000867.89E-1566122No hitNo description
PfamPF000463.0E-1767120IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.604.1E-2068128IPR009057Homeodomain-like
PRINTSPR000311.2E-592101IPR000047Helix-turn-helix motif
PROSITE patternPS00027096119IPR017970Homeobox, conserved site
PRINTSPR000311.2E-5101117IPR000047Helix-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: 147 aa     Download sequence    Send to blast
MDQNVLGTQV YPYTTQTHSQ CIFVNQIDGL SSGEVSKPVK RRRKRRSKGL SATSEDDMTA  60
IGVMLRKRKL TDQQVNMLEF SFENEHKLES GRKEKIAGEL GLDPRQVAVW FQNRRARWKN  120
KKLEEEYAKL KSQHDTVVLG QCQLESQ
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_29491.1_g00001.1
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892251e-141AC189225.2 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_018433288.11e-106PREDICTED: homeobox-leucine zipper protein ATHB-53
SwissprotQ9LVR07e-70ATB53_ARATH; Homeobox-leucine zipper protein ATHB-53
TrEMBLA0A078JXM23e-93A0A078JXM2_BRANA; BnaA07g37510D protein
TrEMBLA0A397YKD13e-93A0A397YKD1_BRACM; Uncharacterized protein
TrEMBLM4D6I43e-93M4D6I4_BRARP; Uncharacterized protein
STRINGBra012093.1-P5e-94(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
AT5G66700.19e-72homeobox 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]