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 RrC2708_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: 299aa    MW: 34303.8 Da    PI: 4.7246
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2708_p1genomeMSUView 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
  RrC2708_p1  66 KKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWK 119
                 45578899*********************************************9 PP
2HD-ZIP_I/II126.61.1e-4065156192
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                  ekkrrl  +qvk+LE++Fe e+kLeperK++la+eLglqprqvavWFqnrRAR+ktkqlEkdy  Lk++yd+l+++ ++L++++e+L  +++
   RrC2708_p1  65 EKKRRLRVDQVKALEKNFELENKLEPERKTKLAQELGLQPRQVAVWFQNRRARWKTKQLEKDYGLLKSQYDSLRHSFDSLRRDNESLVLKIS 156
                  69************************************************************************************997776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.13E-1856123IPR009057Homeodomain-like
PROSITE profilePS5007116.81161121IPR001356Homeobox domain
SMARTSM003891.5E-1664125IPR001356Homeobox domain
CDDcd000864.19E-1666122No hitNo description
PfamPF000461.4E-1566119IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.1E-1969128IPR009057Homeodomain-like
PRINTSPR000316.9E-692101IPR000047Helix-turn-helix motif
PROSITE patternPS00027096119IPR017970Homeobox, conserved site
PRINTSPR000316.9E-6101117IPR000047Helix-turn-helix motif
PfamPF021834.3E-16121162IPR003106Leucine 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: 299 aa     Download sequence    Send to blast
MAKSHNLYCL DLCFFFDELI GYLTTDEQSR RGYGHNFQPM LDGYEEDSTM VEEYSGNHHH  60
MGLSEKKRRL RVDQVKALEK NFELENKLEP ERKTKLAQEL GLQPRQVAVW FQNRRARWKT  120
KQLEKDYGLL KSQYDSLRHS FDSLRRDNES LVLKISELKA KINDGEEDDN NNDDKKVTAE  180
SDISAAKEEN VPSSPPEFIE HSTGFNYRRS FTDLRDLLPN TTAAVDGGFS DSCDSSAVFN  240
DETSSDNGRL TPPPPPPTVT GGSFLRFVKT ERMEDHDDFL SGEEACGFFS DEQPPSLHW
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1113121RRARWKTKQ
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018449254.10.0PREDICTED: homeobox-leucine zipper protein ATHB-16-like
SwissprotQ940J11e-157ATB16_ARATH; Homeobox-leucine zipper protein ATHB-16
TrEMBLE4MW351e-157E4MW35_EUTHA; mRNA, clone: RTFL01-02-C17
TrEMBLV4MKN01e-157V4MKN0_EUTSA; Uncharacterized protein
STRINGXP_006411810.11e-157(Eutrema salsugineum)
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-138homeobox 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]