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_009110377.1
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: 670aa    MW: 74384.8 Da    PI: 7.0126
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009110377.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.11.7e-19758556
                    SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                    +++t++q+++Le++F+++++p++++r +L+++lgL  rq+k+WFqNrR+++k
  XP_009110377.1  7 HRHTPHQIQRLESAFNECQHPDEKQRMQLSRELGLAPRQIKFWFQNRRTQKK 58
                    689**********************************************988 PP
2START148.94.5e-471924132206
                     HHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SEEEEEE CS
           START   2 laeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlakaetle 83 
                     +a +a++el+++ + +ep+W k     + +n + +   f+++ +       +++ea+r sg+v+ ++ +lv  l+d+ +    +   +a+ +tl+
  XP_009110377.1 192 VAVTAMEELLRLTQTNEPLWIKNDgarDVLNLESYENMFPRASSrggknhnSRVEASRSSGIVFINAITLVDMLMDSVKsaeLFPSVVASSKTLA 286
                     7899******************99999777777777777776667789999**************************999999************ PP

                     EECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE CS
           START  84 vissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvd 171
                     v+ssg       al+lm  elq+lsplvp R+f  +Ry++q + g+w+iv vS + +q+ + +    R  ++pSg+li+++sng++kvtwvehv+
  XP_009110377.1 287 VVSSGlrgnhgDALHLMLEELQMLSPLVPtREFSLLRYCQQIEHGTWAIVNVSYELPQFMS-H---SRPYRFPSGCLIQDMSNGYCKVTWVEHVE 377
                     ***********************************************************99.4...55566************************ PP

                     --SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 172 lkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                      +++ p h++++  v+ gla+ga +w atlqr ce+
  XP_009110377.1 378 ISEQEPiHEMFKDSVREGLAFGAERWIATLQRMCER 413
                     **********************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007117.41160IPR001356Homeobox domain
SMARTSM003891.1E-18164IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.7E-19264IPR009057Homeodomain-like
CDDcd000862.51E-19261No hitNo description
SuperFamilySSF466896.68E-18263IPR009057Homeodomain-like
PfamPF000464.0E-17758IPR001356Homeobox domain
PROSITE patternPS0002703558IPR017970Homeobox, conserved site
PROSITE profilePS5084848.004182416IPR002913START domain
SuperFamilySSF559611.65E-29183415No hitNo description
CDDcd088752.45E-101186412No hitNo description
SMARTSM002341.5E-32191413IPR002913START domain
PfamPF018523.0E-39192413IPR002913START domain
Gene3DG3DSA:3.30.530.203.3E-6243380IPR023393START-like domain
SuperFamilySSF559612.88E-19429607No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010091Biological Processtrichome branching
GO:0048497Biological Processmaintenance of floral organ identity
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 670 aa     Download sequence    Send to blast
MKKKRFHRHT PHQIQRLESA FNECQHPDEK QRMQLSRELG LAPRQIKFWF QNRRTQKKAQ  60
HERADNCALK EENDRIRCEN IAIREALKHT ICPTCGDAPS HEDSYFDEQK LRIENAHLRE  120
ELERVSSIAA KFMGRPLSHL PPLLNQMPFH SGGLSLDFDL IPGSGSSMAA PTLPSQPNLV  180
LSDIDKSLMT NVAVTAMEEL LRLTQTNEPL WIKNDGARDV LNLESYENMF PRASSRGGKN  240
HNSRVEASRS SGIVFINAIT LVDMLMDSVK SAELFPSVVA SSKTLAVVSS GLRGNHGDAL  300
HLMLEELQML SPLVPTREFS LLRYCQQIEH GTWAIVNVSY ELPQFMSHSR PYRFPSGCLI  360
QDMSNGYCKV TWVEHVEISE QEPIHEMFKD SVREGLAFGA ERWIATLQRM CERFAALMEP  420
ATSSMIPSPE GKRSIMKLAQ RMVSNFCLSV GTSNNTRSTV VSGMNEFGIR VTSYKSHHEP  480
NGMVLCAATS FWLPVSPLIV FNFLKDERTR PQWDVLLNGS SVQEVAHIAN GSHPGNCISV  540
LRGFNASSSQ NNMLILQESC VDSSGSLVVY TPLDLPALNM AMSGQDTSYI PILPSGFAIS  600
PDGSRSSQIP ELKVEGGSGG GGSLITVGFQ IMVSSLQSGK LNMESMETVN NLISSTVHHI  660
KTTLNCPSTA
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in all cells at the 4- and 16-cell embryo stages. Expression is restricted to the protoderm from the globular stage onward. {ECO:0000269|PubMed:25564655}.
UniprotTISSUE SPECIFICITY: Expressed in apical meristems and young epidermal tissue including trichomes and stipules. Expressed in lateral root tips, the L1 layer of apical inflorescence meristems and early flower primordia, carpel and stamen filament epidermis, stigma papillae, ovule primordia, nucellus and embryo. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as negative regulator of trichome branching in association with HDG11 (PubMed:16778018). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). Acts as positive regulator of SCL18/LAS expression (PubMed:25358340). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:25358340, ECO:0000269|PubMed:25564655}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009110377.1
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_009110376.10.0PREDICTED: homeobox-leucine zipper protein HDG12-like isoform X1
RefseqXP_009110377.10.0PREDICTED: homeobox-leucine zipper protein HDG12-like isoform X2
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLA0A397YIV60.0A0A397YIV6_BRACM; Uncharacterized protein
TrEMBLM4DJA00.0M4DJA0_BRARP; Uncharacterized protein
STRINGBra016578.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17920.10.0homeodomain GLABROUS 12
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]
  2. Tian C, et al.
    An organ boundary-enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation.
    Mol. Syst. Biol., 2014. 10: p. 755
    [PMID:25358340]
  3. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]