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_009106897.1
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: 682aa    MW: 75428.6 Da    PI: 7.2068
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009106897.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.36.4e-194295356
                    --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                    k +++t++q++eLe++F+ +++p++++r eL +kl+L+ +q+k+WFqNrR+++k
  XP_009106897.1 42 KYRRHTSYQIQELESFFKVCPHPNEKQRLELGSKLSLESKQIKFWFQNRRTQMK 95
                    56789**********************************************999 PP
2START171.84.5e-542074253205
                     HHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECT CS
           START   3 aeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla....kaetleviss 87 
                     a  a++el+++a+++ p+W+k s    +s + d ++++f+ sk   +  e +r++g+v  ++ +lve+l+d++ +W e+++     a+t+evis+
  XP_009106897.1 207 AAVAMDELIRLAEVDNPLWTKCSkserDSMKHDQYTSIFAGSKHpgFAAEGSRETGLVLINSSTLVETLMDTN-RWAEMFEcivaVASTVEVISN 300
                     56689******************9999999999******9988888888889*********************.********************* PP

                     T......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SS CS
           START  88 g......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgr 175
                     g      gal lm+ae+q++splvp R   f+Ry++q+g+g w++vdvS d++++ +  +s+   ++lpSg++i++ +ng skvtw+eh +++g+
  XP_009106897.1 301 GsggsrnGALLLMQAEFQVMSPLVPiRQLKFLRYCKQHGDGLWAVVDVSYDVNRESQDLKSYGGLKRLPSGCIIQDIGNGCSKVTWIEHSEYEGS 395
                     *******************************************************99999*********************************** PP

                     XXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
           START 176 lphwllrslvksglaegaktwvatlqrqce 205
                     ++h l+++l++s++  ga +w+atlqr ce
  XP_009106897.1 396 HIHPLYQQLLGSSVGLGATKWLATLQRRCE 425
                     *****************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.88E-182297IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.3E-192597IPR009057Homeodomain-like
PROSITE profilePS5007116.4063797IPR001356Homeobox domain
SMARTSM003892.7E-1539101IPR001356Homeobox domain
PfamPF000461.3E-164295IPR001356Homeobox domain
CDDcd000861.41E-154297No hitNo description
PROSITE profilePS5084845.823196429IPR002913START domain
SuperFamilySSF559611.87E-31200427No hitNo description
CDDcd088757.25E-105201425No hitNo description
SMARTSM002346.2E-43205426IPR002913START domain
PfamPF018525.2E-48207426IPR002913START domain
Gene3DG3DSA:3.30.530.202.4E-4210409IPR023393START-like domain
SuperFamilySSF559612.64E-18452675No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 682 aa     Download sequence    Send to blast
MNGDFDISKG DDEFESDSFE AMSGDDDDKH EQRPKKKKKM SKYRRHTSYQ IQELESFFKV  60
CPHPNEKQRL ELGSKLSLES KQIKFWFQNR RTQMKTQLER HENAILRQEN EKLRVENGIL  120
KEAMRSPPTC NNCGGAATPG NVSHDQQQLR MENAKLKYEL DKLCALANRF IGGSISLEQP  180
SNGGVGSQDL SLGHGFTRGT STFMDIAAVA MDELIRLAEV DNPLWTKCSK SERDSMKHDQ  240
YTSIFAGSKH PGFAAEGSRE TGLVLINSST LVETLMDTNR WAEMFECIVA VASTVEVISN  300
GSGGSRNGAL LLMQAEFQVM SPLVPIRQLK FLRYCKQHGD GLWAVVDVSY DVNRESQDLK  360
SYGGLKRLPS GCIIQDIGNG CSKVTWIEHS EYEGSHIHPL YQQLLGSSVG LGATKWLATL  420
QRRCESYTTL LSSQDQTGLP LAGTKSTLTL AQRMKRNFYS GITGSPIHKW EKLVAENVGQ  480
ETRILTRKSL QPSGVVLSAA TSMWLPVTQQ RLFEFLCDSK CRNQWDILCN GASMENMLLI  540
PQRQSEGRCV SLLQHAGKHQ NESSMLILQE TWSDASGALV VYAPVDVPST NMVMSGGDSA  600
NVALLPSGFS ISPDGSSSWS DQIDKNGGLV NHESKGCLLT VGFQILVNSV PTTKLNMESV  660
QTVNNLIACT IHKIKAALSI PA
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cells around the base of leaf primordia, in the outermost 2 to 3 cell layers along the boundary between two leaf primordia. Expressed in lateral root primordia and tips, and in the epidermal boundaries of two cotyledons at heart-stage embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the DNA sequence 5'-GCATTAAATGC-3'. {ECO:0000269|PubMed:16778018}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00559DAPTransfer from AT5G52170Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009106897.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0256031e-103AB025603.1 Arabidopsis thaliana genomic DNA, chromosome 5, BAC clone:F17P19.
GenBankCP0026881e-103CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009106897.10.0PREDICTED: homeobox-leucine zipper protein HDG7
SwissprotQ9LTK30.0HDG7_ARATH; Homeobox-leucine zipper protein HDG7
TrEMBLM4EHN00.0M4EHN0_BRARP; Uncharacterized protein
STRINGBra028295.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112827105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G52170.10.0homeodomain GLABROUS 7
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]