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 RrC4816_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: 228aa    MW: 26825.8 Da    PI: 4.666
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4816_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.22.8e-183182556
                SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                 +f++eq++ Le  Fe++  +  +++ +LA++lgL+ rqV +WFqN+Ra++k
  RrC4816_p1 31 KRFSEEQIKSLEVIFESETRLEPRRKVQLARELGLQPRQVAIWFQNKRARWK 82
                57*************************************************9 PP
2HD-ZIP_I/II117.95.7e-3829120293
  HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                  +++r+s+eq+k+LE  Fe+e++Lep+rKv+lareLglqprqva+WFqn+RAR+k+kqlEk+y+ L ++y++l+++ e ++ke+++L +el++
   RrC4816_p1  29 NHKRFSEEQIKSLEVIFESETRLEPRRKVQLARELGLQPRQVAIWFQNKRARWKSKQLEKEYNILSANYNNLASQFEIMKKEKQALVSELQR 120
                  579*************************************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466895.01E-181186IPR009057Homeodomain-like
SMARTSM003892.7E-162388IPR001356Homeobox domain
PROSITE profilePS5007116.6652484IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.8E-193191IPR009057Homeodomain-like
PfamPF000461.2E-153182IPR001356Homeobox domain
CDDcd000861.04E-133285No hitNo description
PRINTSPR000314.9E-65564IPR000047Helix-turn-helix motif
PROSITE patternPS0002705982IPR017970Homeobox, conserved site
PRINTSPR000314.9E-66480IPR000047Helix-turn-helix motif
PfamPF021831.2E-1484125IPR003106Leucine 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: 228 aa     Download sequence    Send to blast
MEEGDFISCF SEINSGMTMN KKKMRKGTNH KRFSEEQIKS LEVIFESETR LEPRRKVQLA  60
RELGLQPRQV AIWFQNKRAR WKSKQLEKEY NILSANYNNL ASQFEIMKKE KQALVSELQR  120
LNEEMKKTRE ERNDECCAEQ RVALSSSTWS DNGNYEPEVR LNQGIVLCND DIKSEYFGFE  180
EESNHELMNI VDQADDSGLT SSDNWGDFNS ESLLDQSSSN YPWWDFWS
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that may act as growth regulators in response to water deficit. {ECO:0000269|PubMed:11374882, ECO:0000269|PubMed:15604708}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By water deficit, by abscisic acid (ABA), by cold and salt stress. {ECO:0000269|PubMed:15369784, ECO:0000269|PubMed:16055682, ECO:0000269|PubMed:9617808}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT0006020.0KT000602.1 Brassica napus note R1 line homeobox-leucine zipper protein (ATHB-12) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138744.11e-158PREDICTED: homeobox-leucine zipper protein ATHB-12-like
RefseqXP_013631796.11e-158PREDICTED: homeobox-leucine zipper protein ATHB-12-like
RefseqXP_022556559.11e-158homeobox-leucine zipper protein ATHB-12-like
RefseqXP_022556560.11e-158homeobox-leucine zipper protein ATHB-12-like
SwissprotQ9M2761e-111ATB12_ARATH; Homeobox-leucine zipper protein ATHB-12
TrEMBLA0A397ZGR31e-158A0A397ZGR3_BRACM; Uncharacterized protein
STRINGBra014417.1-P1e-157(Brassica rapa)
STRINGBo4g100070.11e-157(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM24982874
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61890.11e-114homeobox 12
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]
  2. Liu C,Wang B,Li Z,Peng Z,Zhang J
    TsNAC1 Is a Key Transcription Factor in Abiotic Stress Resistance and Growth.
    Plant Physiol., 2018. 176(1): p. 742-756
    [PMID:29122985]
  3. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]