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 XP_009130625.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family HD-ZIP
Protein Properties Length: 301aa    MW: 34021.4 Da    PI: 4.6447
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009130625.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.32.6e-1866119356
                     --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     k++++  +q+++Le+ Fe ++++  e++++LA++lgL+ rqV vWFqNrRa++k
  XP_009130625.1  66 KKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWK 119
                     45578899*********************************************9 PP
2HD-ZIP_I/II127.94.3e-4165157193
     HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                     ekkrrl  +qvk+LE++Fe e+kLeperK++la+eLglqprqvavWFqnrRAR+ktkqlEkdy  Lk++yd+l+++ ++L++++++L +e+++
  XP_009130625.1  65 EKKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWKTKQLEKDYGLLKSQYDSLRHNFDSLRRDNDSLLQEISK 157
                     69*************************************************************************************999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.38E-1858123IPR009057Homeodomain-like
PROSITE profilePS5007116.81161121IPR001356Homeobox domain
SMARTSM003891.5E-1664125IPR001356Homeobox domain
CDDcd000861.70E-1666122No hitNo description
PfamPF000461.4E-1566119IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.8E-1969128IPR009057Homeodomain-like
PRINTSPR000317.0E-692101IPR000047Helix-turn-helix motif
PROSITE patternPS00027096119IPR017970Homeobox, conserved site
PRINTSPR000317.0E-6101117IPR000047Helix-turn-helix motif
PfamPF021831.3E-16121162IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0030308Biological Processnegative regulation of cell growth
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 301 aa     Download sequence    Send to blast
MMKRLSSSDS MCGLVSNSPV TCLATDEQSP RGYGSNFQSM LDGYEEDGTI VEEYSGNHHH  60
MGLSEKKRRL RVDQVKALEK NFELENKLEP ERKTKLAQEL GLQPRQVAVW FQNRRARWKT  120
KQLEKDYGLL KSQYDSLRHN FDSLRRDNDS LLQEISKMKG KINGEDEDNN NVKATTESDI  180
SAVKEEEDPM PSSPPQFLEH STGFNYRRSF TDLRDLMPNP VVEAGSSDSC DSSAVLNEET  240
SSENGRLTPP PPATVAGGSF LQFVKTEDHD EFFSGEEACG GFFSDEQPPS LNWYSASDHW  300
T
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1113121RRARWKTKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.62140.0bud| flower| leaf| root| silique
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed with a lower level in siliques. {ECO:0000269|PubMed:16055682}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may function as a negative regulator of the flowering time response to photoperiod. May act to repress cell expansion during plant development. {ECO:0000269|PubMed:14623244}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00051PBMTransfer from AT4G40060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009130625.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3527321e-147AK352732.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-02-C17.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009130625.10.0PREDICTED: homeobox-leucine zipper protein ATHB-16-like isoform X1
RefseqXP_013731599.10.0homeobox-leucine zipper protein ATHB-16-like isoform X1
SwissprotQ940J11e-180ATB16_ARATH; Homeobox-leucine zipper protein ATHB-16
TrEMBLA0A3P5Z0V20.0A0A3P5Z0V2_BRACM; Uncharacterized protein
TrEMBLM4D5Q10.0M4D5Q1_BRARP; Uncharacterized protein
STRINGBra011808.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54528143
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G40060.11e-168homeobox protein 16
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]