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 RrC1476_p2
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family HD-ZIP
Protein Properties Length: 690aa    MW: 76549.3 Da    PI: 7.1786
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1476_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.21.6e-192374556
                SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                +++t++q++ Le++F+++++p++++r +L+++lgL  rq+k+WFqNrR+++k
  RrC1476_p2 23 HRHTPHQIQLLESAFNECQHPDEKQRMQLSRELGLAPRQIKFWFQNRRTQKK 74
                689**********************************************988 PP
2START141.58.2e-452134342206
                 HHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SEEEEE CS
       START   2 laeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlakaetl 82 
                 +a +  +el+++ + +ep+W k          e      +   +++s +       +++ea+r sg+v+ ++++lv  l+d+ +    +   +a+ +tl
  RrC1476_p2 213 IAVTSVEELLRLTQTNEPLWIKTDgardvlnlE-----SYENMLPRSSSrggknhnSRVEASRSSGIVFTNAMTLVDMLMDSVKsaeLFPSVVAASKTL 306
                 6778899***************99998555331.....3333333333344566779*************************999999*********** PP

                 EEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--S CS
       START  83 evissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkg 174
                 +v+ssg       al+lm  elq+lsplvp R+f ++Ry++q + g+w++v vS + +q+ + ss + R   +pSg+li++++ng+skvtwvehv+ ++
  RrC1476_p2 307 AVVSSGtrgnhgDALHLMLEELQVLSPLVPtREFSVLRYCQQIEHGTWAVVNVSYELPQFIS-SSRLYR---YPSGCLIQDMANGYSKVTWVEHVEISD 401
                 ***********99***********************************************98.677777...************************987 PP

                 S.XXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
       START 175 r.lphwllrslvksglaegaktwvatlqrqcek 206
                 + ++h++++ +v+ gla+ga +w a lqr ce+
  RrC1476_p2 402 QeQVHEMFKDTVREGLAFGAERWIASLQRMCER 434
                 6277***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.2E-201070IPR009057Homeodomain-like
SuperFamilySSF466896.68E-191176IPR009057Homeodomain-like
PROSITE profilePS5007117.3131676IPR001356Homeobox domain
SMARTSM003895.9E-191780IPR001356Homeobox domain
CDDcd000867.96E-191877No hitNo description
PfamPF000464.9E-172374IPR001356Homeobox domain
PROSITE patternPS0002705174IPR017970Homeobox, conserved site
PROSITE profilePS5084845.113203437IPR002913START domain
SuperFamilySSF559611.65E-28205435No hitNo description
CDDcd088753.85E-98207433No hitNo description
SMARTSM002341.3E-32212434IPR002913START domain
PfamPF018522.8E-37214434IPR002913START domain
Gene3DG3DSA:3.30.530.204.8E-6264402IPR023393START-like domain
SuperFamilySSF559611.29E-19450652No 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: 690 aa     Download sequence    Send to blast
MKMEFLGDIS ETDKKTMKKK RFHRHTPHQI QLLESAFNEC QHPDEKQRMQ LSRELGLAPR  60
QIKFWFQNRR TQKKAQHERA DNCALKEEND RIRCENIAIR EALKHTICPT CGDTPAHEDS  120
HFDEQKLRIQ NAQLREELER VSSIAAKFMG RPLPHLPPLL LNQTPRELFH GGGPSLDFDL  180
LPASCPSMAA TTLLPSQPNL VLSNMDKSLM TNIAVTSVEE LLRLTQTNEP LWIKTDGARD  240
VLNLESYENM LPRSSSRGGK NHNSRVEASR SSGIVFTNAM TLVDMLMDSV KSAELFPSVV  300
AASKTLAVVS SGTRGNHGDA LHLMLEELQV LSPLVPTREF SVLRYCQQIE HGTWAVVNVS  360
YELPQFISSS RLYRYPSGCL IQDMANGYSK VTWVEHVEIS DQEQVHEMFK DTVREGLAFG  420
AERWIASLQR MCERLTALME PATSSAIPSP EGKRSVMKLA QRMVRNFCLS VGTSNNTRST  480
VVSGMNEFGI RVTSYKSQHE PNGTVLCAAT SFWLPVSPLI VFNFLKDERT RPQWDVLLNG  540
SSVQEVAHIA NGSHPGNCIS VLRGFNASSS QNNMLILQES CVDSSGSLVV YTPVDLPALN  600
MAMSGQDTSY IPILPSGFAI LPDGSRNKQT PELKAEGGGG GGSLITVGFQ IMVSSLQSGK  660
LNMESMETVN NLISSTVHHI KTTLNCPSTA
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}.
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_018451633.10.0PREDICTED: homeobox-leucine zipper protein HDG12-like isoform X2
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLM4DJA00.0M4DJA0_BRARP; Uncharacterized protein
STRINGBra016578.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
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]