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_04146.1_g00004.1
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: 176aa    MW: 20318.1 Da    PI: 9.4185
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04146.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.55.6e-192477356
                             --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                             k++++t eq++ Le+ Fe+++++  e+++eLAk lgL++rqV vWFqNr+a+ k
  Rsa1.0_04146.1_g00004.1 24 KKRRLTFEQVNMLEKSFEEDNKLEPERKTELAKVLGLPKRQVAVWFQNRKARSK 77
                             5568999*********************************************98 PP
2HD-ZIP_I/II121.44.7e-3923113191
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              ekkrrl+ eqv++LE+sFee++kLeperK+ela+ Lgl +rqvavWFqnr+AR k kq+E+dy++Lk++yd+l +++e++ +e+e+
  Rsa1.0_04146.1_g00004.1  23 EKKRRLTFEQVNMLEKSFEEDNKLEPERKTELAKVLGLPKRQVAVWFQNRKARSKVKQIERDYDVLKACYDSLLAKHESVISENEK 108
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreel 91 
                              Lr+++
  Rsa1.0_04146.1_g00004.1 109 LRSKV 113
                              **987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007117.1671979IPR001356Homeobox domain
SMARTSM003891.7E-162283IPR001356Homeobox domain
SuperFamilySSF466892.01E-182288IPR009057Homeodomain-like
PfamPF000462.6E-162477IPR001356Homeobox domain
CDDcd000869.67E-152480No hitNo description
Gene3DG3DSA:1.10.10.601.7E-192686IPR009057Homeodomain-like
PRINTSPR000318.9E-65059IPR000047Helix-turn-helix motif
PROSITE patternPS0002705477IPR017970Homeobox, conserved site
PRINTSPR000318.9E-65975IPR000047Helix-turn-helix motif
PfamPF021839.5E-1779120IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 176 aa     Download sequence    Send to blast
MDPKHDQESR SAPTGAINNQ PAEKKRRLTF EQVNMLEKSF EEDNKLEPER KTELAKVLGL  60
PKRQVAVWFQ NRKARSKVKQ IERDYDVLKA CYDSLLAKHE SVISENEKLR SKVLTLTKML  120
PPATNQTQRN FQVKLNSKGD DETISSSAAL VPLANDHYFT NVDETFGWWV WPSNLM
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator involved in leaf development. Binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269|PubMed:8535134}.
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269|PubMed:10732669}.
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269|PubMed:10732669}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04146.1_g00004.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325485e-99AC232548.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH010J09, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018443926.11e-129PREDICTED: homeobox-leucine zipper protein HAT5-like
SwissprotQ022837e-40HAT5_ARATH; Homeobox-leucine zipper protein HAT5
SwissprotQ6ZA741e-39HOX5_ORYSJ; Homeobox-leucine zipper protein HOX5
SwissprotQ9XH361e-39HOX5_ORYSI; Homeobox-leucine zipper protein HOX5
TrEMBLA0A078FBB51e-110A0A078FBB5_BRANA; BnaC06g12880D protein
STRINGBo6g064420.11e-110(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM163821113
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G01470.13e-42homeobox 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Ribone PA,Capella M,Arce AL,Chan RL
    A uORF Represses the Transcription Factor AtHB1 in Aerial Tissues to Avoid a Deleterious Phenotype.
    Plant Physiol., 2017. 175(3): p. 1238-1253
    [PMID:28956754]