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_009121397.1
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: 723aa    MW: 81384.6 Da    PI: 7.3926
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009121397.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox56.83.7e-182479156
                    TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox  1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                    +++  +++++q+++Le++F+++++p+ ++r +L ++l+L+ +q+k+WFqN+R++ k
  XP_009121397.1 24 KKNYNRHSNHQIQRLEAYFKECHHPDDSQRLKLGEELKLKPKQIKFWFQNKRTQAK 79
                    6788899**********************************************988 PP
2START134.98.6e-432404603206
                     HHHHHHHHHHHHHHC-TT-EEEE.......EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEE CS
           START   3 aeeaaqelvkkalaeepgWvkss.......esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla....kaetlev 84 
                     + +a++e++++++ ee +W +ss       +++n++++ ++++  k+  +++e +++++v +m++ +lv+ lld+  +W + +     +a+t+ v
  XP_009121397.1 240 MVTAMTEVITLIQTEESMWIQSSidgrlviDQKNYEKTFTNPSHFKSpsSRIESSKEVAVIPMDAKNLVNMLLDTE-KWANLFStivsEAKTIHV 333
                     6799**************************************7766699***************************.88888877777******* PP

                     ECTT....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--...-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE- CS
           START  85 issg....galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe..sssvvRaellpSgiliepksnghskvtwvehvdl 172
                     ++s     ++  lm+ +l  lspl p R+f+++R+++ql++++wvi+dvS  + ++  e  ++ +v+   +pSg+li+ ++nghskvtw+ehv++
  XP_009121397.1 334 LESMdprrNFSKLMYEQLHILSPLLPpREFMILRCCQQLEEDVWVIADVSYHQVAFEFEfeTPACVK---RPSGCLIQALPNGHSKVTWMEHVEV 425
                     *998899*999*************999*****************************99766666666...************************* PP

                     -SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
           START 173 kgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                     ++++  h ++r l+  g   ga++w+atl+r ce+
  XP_009121397.1 426 NDKVRsHRIYRDLLCGGFGYGARRWTATLERMCER 460
                     ****99***************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.608.4E-18782IPR009057Homeodomain-like
SuperFamilySSF466891.17E-16881IPR009057Homeodomain-like
PROSITE profilePS5007115.8722181IPR001356Homeobox domain
SMARTSM003892.5E-172385IPR001356Homeobox domain
PfamPF000461.1E-152479IPR001356Homeobox domain
CDDcd000863.33E-152482No hitNo description
PROSITE profilePS5084839.477229463IPR002913START domain
SuperFamilySSF559611.92E-27231461No hitNo description
CDDcd088752.83E-92233459No hitNo description
SMARTSM002341.7E-29238460IPR002913START domain
PfamPF018523.8E-36240460IPR002913START domain
Gene3DG3DSA:3.30.530.203.4E-7243425IPR023393START-like domain
SuperFamilySSF559618.52E-6484687No 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: 723 aa     Download sequence    Send to blast
MASSRDSSSS DEDETSFNTS DGDKKNYNRH SNHQIQRLEA YFKECHHPDD SQRLKLGEEL  60
KLKPKQIKFW FQNKRTQAKT QSEKADNAAL RTENMKIRRE NEALQAALNT VTCPPCGGPR  120
PGKGERTLYL QNLRTHNTYL REERDRLSSL VNKSEGHSRP SFNALAYHHG PSLYASASNN  180
PHVTYGSSSN YRVEPSSLVK EPYSRERINI GQPPQPRNPI QLQRFQTLSQ MEKVTMTEAM  240
VTAMTEVITL IQTEESMWIQ SSIDGRLVID QKNYEKTFTN PSHFKSPSSR IESSKEVAVI  300
PMDAKNLVNM LLDTEKWANL FSTIVSEAKT IHVLESMDPR RNFSKLMYEQ LHILSPLLPP  360
REFMILRCCQ QLEEDVWVIA DVSYHQVAFE FEFETPACVK RPSGCLIQAL PNGHSKVTWM  420
EHVEVNDKVR SHRIYRDLLC GGFGYGARRW TATLERMCER LSLYSISGLP TTDFPGVVDT  480
MDGRKRVMDL GERMLKNFAW ILKMPEKSGF SQQTATNSSG VRISVRVNEE VGQPAGLIVC  540
AGLSLCLPLA PLQVYSFLKN LEVRHQWDVL CQASPVTEVA RFVTGTDNKN CVNILKPSSA  600
TENGALMIIQ DSFIDALGGM VVYAPVDLRT AHAAFLGNVD PSSIPILPSG FVISRDGRPP  660
SAAELDGGLD NCKTLLTVAF QILVTGPAMF EEDQMNEWTT KVHTLLSSTI RRVKGMLNCD  720
DAQ
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers with highest levels in the tapetum and pollen grains, and chalazal end of the embryo sac. {ECO:0000269|PubMed:16778018}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the DNA sequence 5'-GCATTAAATGCGCA-3'. {ECO:0000269|PubMed:16778018}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009121397.1
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_009121397.10.0PREDICTED: homeobox-leucine zipper protein HDG10-like
SwissprotQ9FFI00.0HDG9_ARATH; Homeobox-leucine zipper protein HDG9
TrEMBLM4CWG50.0M4CWG5_BRARP; Uncharacterized protein
STRINGBra008562.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84681531
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34650.10.0homeodomain GLABROUS 10
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]