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_009125041.1
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: 269aa    MW: 31221.8 Da    PI: 6.5112
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009125041.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox52.39.9e-1775127456
                     -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     + +++ eq+++Le+ Fe  +++  e++ +LAk lg++ rq+ +WFqNrRa++k
  XP_009125041.1  75 KKRLQLEQVKVLEKSFELGNKLEPERKIQLAKALGMQLRQIAIWFQNRRARWK 127
                     4457889*********************************************9 PP
2HD-ZIP_I/II119.61.6e-3873165193
     HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                     ekk+rl+ eqvk+LE+sFe  +kLeperK +la++Lg+q rq+a+WFqnrRAR+kt+qlE+dy++Lk+++++lk++n++L +++++L +e+++
  XP_009125041.1  73 EKKKRLQLEQVKVLEKSFELGNKLEPERKIQLAKALGMQLRQIAIWFQNRRARWKTRQLERDYDSLKKQFESLKSDNDSLLAHNKKLLAEVMS 165
                     69*************************************************************************************999875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466894.71E-1869131IPR009057Homeodomain-like
SMARTSM003891.5E-1572133IPR001356Homeobox domain
PROSITE profilePS5007115.74273129IPR001356Homeobox domain
CDDcd000861.10E-1474130No hitNo description
PfamPF000465.6E-1475127IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.3E-1777137IPR009057Homeodomain-like
PRINTSPR000316.1E-5100109IPR000047Helix-turn-helix motif
PROSITE patternPS000270104127IPR017970Homeobox, conserved site
PRINTSPR000316.1E-5109125IPR000047Helix-turn-helix motif
PfamPF021831.0E-15130168IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 269 aa     Download sequence    Send to blast
MALPQHAFMF QQRHEDNSHD QLPSCPPPHL FNGGGNYMMN RSMSLMNVQE DHHQSVDHEE  60
NLSDDGAHMM LGEKKKRLQL EQVKVLEKSF ELGNKLEPER KIQLAKALGM QLRQIAIWFQ  120
NRRARWKTRQ LERDYDSLKK QFESLKSDND SLLAHNKKLL AEVMSLKNND CNEGSIIKRE  180
AEASWSNNGS IENSSDINLE IPRETTTTPV STIKDLFPSS IRASTHHRQN HEMVQEESLC  240
NMFNGIEETT TDGYWAWSDP NHNNHRQFN
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed 3 day after germination (DAG) in first rosette leaf primordia around the veins in the apical part of the leaf and close to the midvein in the basal part of the leaf. At later stage, expressed in new forming veins, and veins and fascicular cambium of mature leaves. {ECO:0000269|PubMed:12644682}.
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:16055682}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00322DAPTransfer from AT3G01220Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009125041.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:12644682}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2288900.0AK228890.1 Arabidopsis thaliana mRNA for putative homeobox-leucine zipper protein, complete cds, clone: RAFL16-20-K05.
GenBankAY0876310.0AY087631.1 Arabidopsis thaliana clone 3722 mRNA, complete sequence.
GenBankBT0292210.0BT029221.1 Arabidopsis thaliana At3g01220 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009125041.10.0PREDICTED: homeobox-leucine zipper protein ATHB-20-like
SwissprotQ8LAT01e-167ATB20_ARATH; Homeobox-leucine zipper protein ATHB-20
TrEMBLA0A398AUP00.0A0A398AUP0_BRACM; Uncharacterized protein
TrEMBLA0A3P5ZRK40.0A0A3P5ZRK4_BRACM; Uncharacterized protein (Fragment)
STRINGscaffold_300109.11e-173(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30952666
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G01220.11e-169homeobox protein 20