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_009125133.1
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: 178aa    MW: 20622.3 Da    PI: 6.7956
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009125133.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.52.6e-192680357
                    --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS
        Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57
                    k++++t eq++ Le+ Fe+++++  e+++eLAk lgL++rqV vWFqNr+a+ k+
  XP_009125133.1 26 KKRRLTIEQVNMLEKSFEEENKLEPERKTELAKMLGLPQRQVAVWFQNRKARCKN 80
                    56689***********************************************995 PP
2HD-ZIP_I/II121.44.4e-3925115191
     HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                     ekkrrl+ eqv++LE+sFeee+kLeperK+ela+ Lgl +rqvavWFqnr+AR k+k++E+dy++Lk++yd+l +++e++ +e+e+L++++
  XP_009125133.1  25 EKKRRLTIEQVNMLEKSFEEENKLEPERKTELAKMLGLPQRQVAVWFQNRKARCKNKKIERDYDVLKACYDSLLAKHESVISENEKLKSKV 115
                     69**************************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466894.71E-191282IPR009057Homeodomain-like
PROSITE profilePS5007117.2652181IPR001356Homeobox domain
SMARTSM003892.1E-182485IPR001356Homeobox domain
PfamPF000461.6E-162679IPR001356Homeobox domain
CDDcd000861.56E-152682No hitNo description
Gene3DG3DSA:1.10.10.602.1E-202888IPR009057Homeodomain-like
PRINTSPR000313.1E-65261IPR000047Helix-turn-helix motif
PROSITE patternPS0002705679IPR017970Homeobox, conserved site
PRINTSPR000313.1E-66177IPR000047Helix-turn-helix motif
PfamPF021831.3E-1581122IPR003106Leucine 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
MDPNYDQESR SRSAPTGEID SQPAEKKRRL TIEQVNMLEK SFEEENKLEP ERKTELAKML  60
GLPQRQVAVW FQNRKARCKN KKIERDYDVL KACYDSLLAK HESVISENEK LKSKVFTLTE  120
MLLPAAHQTQ RNLQGKLNSK GDDETMSSST ALVPLANDHY FTNVDESFGW WVWPSNLM
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, leaves, nodes, internodes, flowers and embryo. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:17999151}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, leaves, nodes, internodes, flowers and embryo. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:17999151}.
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:16055682}.
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
PlantRegMapXP_009125133.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325481e-132AC232548.1 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_009125133.11e-132PREDICTED: homeobox-leucine zipper protein HAT5-like
SwissprotQ022833e-40HAT5_ARATH; Homeobox-leucine zipper protein HAT5
SwissprotQ6ZA747e-40HOX5_ORYSJ; Homeobox-leucine zipper protein HOX5
SwissprotQ9XH367e-40HOX5_ORYSI; Homeobox-leucine zipper protein HOX5
TrEMBLA0A3P6BRF41e-130A0A3P6BRF4_BRACM; Uncharacterized protein
TrEMBLM4EI391e-130M4EI39_BRARP; Uncharacterized protein
STRINGBra028454.1-P1e-131(Brassica rapa)
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
AT3G01470.11e-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]