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_009116857.1
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: 230aa    MW: 26946.1 Da    PI: 5.5176
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009116857.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox54.81.6e-173485556
                    SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                     +f++eq++ Le  Fe++  +  +++ + A++lgL+ rqV +WFqN+Ra++k
  XP_009116857.1 34 KRFSEEQIKSLEVIFESETRLEPRKKVQVAQELGLQPRQVAIWFQNKRARWK 85
                    68*************************************************9 PP
2HD-ZIP_I/II117.76.7e-3832123293
     HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                     +++r+s+eq+k+LE  Fe+e++Lep++Kv++a+eLglqprqva+WFqn+RAR+ktkqlEk+y+ L+++y++l+++ + ++ke+++L +el++
  XP_009116857.1  32 NQKRFSEEQIKSLEVIFESETRLEPRKKVQVAQELGLQPRQVAIWFQNKRARWKTKQLEKEYNILRANYNHLASQFDIMKKEKQALVSELQR 123
                     689*************************************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466898.17E-171889IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.607.4E-171987IPR009057Homeodomain-like
SMARTSM003892.7E-132491IPR001356Homeobox domain
PROSITE profilePS5007116.7632787IPR001356Homeobox domain
CDDcd000868.35E-133388No hitNo description
PfamPF000468.0E-153485IPR001356Homeobox domain
PRINTSPR000312.4E-55867IPR000047Helix-turn-helix motif
PROSITE patternPS0002706285IPR017970Homeobox, conserved site
PRINTSPR000312.4E-56783IPR000047Helix-turn-helix motif
PfamPF021831.4E-1587128IPR003106Leucine 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: 230 aa     Download sequence    Send to blast
MEEGDVFNCC FSEINSGMSM NKNKKKMKKS NNQKRFSEEQ IKSLEVIFES ETRLEPRKKV  60
QVAQELGLQP RQVAIWFQNK RARWKTKQLE KEYNILRANY NHLASQFDIM KKEKQALVSE  120
LQRLNEEMHK SKEERREECC GEQRVALSST TRSENGKCEP EVRINQGIAL CNDDIKTEYF  180
GFEESNHELM NIVEQAGDSC LTSSDNWGGF NSDSILDQSS SNYPWWDFWS
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:16055682, ECO:0000269|PubMed:9617808}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009116857.1
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
GenBankKT0006000.0KT000600.1 Brassica napus note zy72360 line homeobox-leucine zipper protein (ATHB-12) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009116857.11e-170PREDICTED: homeobox-leucine zipper protein ATHB-12
SwissprotQ9M2761e-115ATB12_ARATH; Homeobox-leucine zipper protein ATHB-12
TrEMBLA0A078J5901e-169A0A078J590_BRANA; BnaA09g55520D protein
TrEMBLA0A397Y3D31e-169A0A397Y3D3_BRACM; Uncharacterized protein
TrEMBLM4CTU31e-169M4CTU3_BRARP; Uncharacterized protein
STRINGBra007637.1-P1e-170(Brassica rapa)
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-108homeobox 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]