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 RrC7304_p1
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: 178aa    MW: 20673.6 Da    PI: 9.6423
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC7304_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.74.8e-192679356
                --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                k++++t eq++ Le+ Fe+++++  e+++eLAk lgL++rqV vWFqNr+a+ k
  RrC7304_p1 26 KKRRLTFEQVNMLEKSFEEDNKLEPERKTELAKVLGLPKRQVAVWFQNRKARCK 79
                5568999*********************************************98 PP
2HD-ZIP_I/II120.86.9e-3925115191
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                  ekkrrl+ eqv++LE+sFee++kLeperK+ela+ Lgl +rqvavWFqnr+AR k kq+E+dy++Lk++yd+l +++e++ +e+e+L +++
   RrC7304_p1  25 EKKRRLTFEQVNMLEKSFEEDNKLEPERKTELAKVLGLPKRQVAVWFQNRKARCKVKQIERDYDVLKACYDSLLAKHESVISENEKLISKV 115
                  69*************************************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.04E-181182IPR009057Homeodomain-like
PROSITE profilePS5007117.1842181IPR001356Homeobox domain
SMARTSM003894.5E-172485IPR001356Homeobox domain
PfamPF000462.6E-162679IPR001356Homeobox domain
CDDcd000866.45E-152682No hitNo description
Gene3DG3DSA:1.10.10.604.8E-202888IPR009057Homeodomain-like
PRINTSPR000319.0E-65261IPR000047Helix-turn-helix motif
PROSITE patternPS0002705679IPR017970Homeobox, conserved site
PRINTSPR000319.0E-66177IPR000047Helix-turn-helix motif
PfamPF021832.1E-1681122IPR003106Leucine 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: 178 aa     Download sequence    Send to blast
MYPKHDQESR SRSVPTGAIN NQRAEKKRRL TFEQVNMLEK SFEEDNKLEP ERKTELAKVL  60
GLPKRQVAVW FQNRKARCKV KQIERDYDVL KACYDSLLAK HESVISENEK LISKVLTLTK  120
MLPPATNQTQ RNFQVKLNSK GDDESMSSSA ALVPLANDHY FTNVDETFGW WVWPSNLM
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325481e-101AC232548.1 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-121PREDICTED: homeobox-leucine zipper protein HAT5-like
SwissprotQ022834e-39HAT5_ARATH; Homeobox-leucine zipper protein HAT5
SwissprotQ6ZA742e-38HOX5_ORYSJ; Homeobox-leucine zipper protein HOX5
SwissprotQ9XH362e-38HOX5_ORYSI; Homeobox-leucine zipper protein HOX5
TrEMBLA0A078FBB51e-110A0A078FBB5_BRANA; BnaC06g12880D protein
STRINGBo6g064420.11e-111(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
AT3G01470.12e-41homeobox 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]