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 RrC810_p1
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: 831aa    MW: 91798 Da    PI: 6.3141
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC810_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.89.2e-191573357
               --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
   Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
               k  ++t+eq+e+Le+l++ +++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  RrC810_p1 15 KYVRYTPEQVEALERLYNDCPKPSSMRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 73
               5679*****************************************************97 PP
2START192.32.4e-601593672205
                HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEEEEXXT CS
      START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlmvaelq 99 
                +a e+++e+++ka+ ++  Wv+++ +++g++++ +++ s++++g a+ra+g+v  +++  v+e+l+dk+ W +++++ ++++v+s++  g+l+l++++l+
  RrC810_p1 159 IADETLTEFISKATGTAVEWVQMPGMKPGPDSIGIVAISHGCTGIAARACGLVGLDPT-RVAEILKDKPSWLRDCRSLDIVNVLSTAngGTLELIYMQLY 257
                68899*****************************************************.99999***99*****************999*********** PP

                TXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHH CS
      START 100 alsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegakt 195
                a+++l+p Rdf+++Ry+  +++g++vi+++S++++q+ p+   s+++vRae lpSg+li+p+++g+s +++v+h+dl+ ++++++lrsl++s++  +++t
  RrC810_p1 258 APTTLAPaRDFWMLRYTSVMEDGSLVICERSLNNTQNGPSmppSPHFVRAEILPSGYLIRPCEGGGSILHIVDHFDLEPWSVPEVLRSLYESSTLLAQRT 357
                **************************************99999********************************************************* PP

                HHHHTXXXXX CS
      START 196 wvatlqrqce 205
                ++a+l+++++
  RrC810_p1 358 TMAALRYLRQ 367
                *****99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.371074IPR001356Homeobox domain
SMARTSM003891.7E-151278IPR001356Homeobox domain
CDDcd000861.19E-161575No hitNo description
SuperFamilySSF466891.58E-161578IPR009057Homeodomain-like
PfamPF000462.7E-161673IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.5E-181773IPR009057Homeodomain-like
CDDcd146861.13E-667106No hitNo description
PROSITE profilePS5084827.225149377IPR002913START domain
CDDcd088753.36E-81153368No hitNo description
Gene3DG3DSA:3.30.530.201.8E-24157363IPR023393START-like domain
SuperFamilySSF559613.57E-37158369No hitNo description
SMARTSM002344.2E-43158368IPR002913START domain
PfamPF018528.2E-58159367IPR002913START domain
PfamPF086703.4E-47690830IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008284Biological Processpositive regulation of cell proliferation
GO:0009733Biological Processresponse to auxin
GO:0010067Biological Processprocambium histogenesis
GO:0010072Biological Processprimary shoot apical meristem specification
GO:0010089Biological Processxylem development
GO:0045597Biological Processpositive regulation of cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 831 aa     Download sequence    Send to blast
MGGGSNNSHH IDNGKYVRYT PEQVEALERL YNDCPKPSSM RRQQLIRECP ILSNIEPKQI  60
KVWFQNRRCR EKQRKEASRL QAVNRKLTAM NKLLMEENDR LQKQVSHLVY ENSYFRQHPQ  120
NGNLTTTDTS CESVVTSGQH HLTPQHQPRD ASPAGLLSIA DETLTEFISK ATGTAVEWVQ  180
MPGMKPGPDS IGIVAISHGC TGIAARACGL VGLDPTRVAE ILKDKPSWLR DCRSLDIVNV  240
LSTANGGTLE LIYMQLYAPT TLAPARDFWM LRYTSVMEDG SLVICERSLN NTQNGPSMPP  300
SPHFVRAEIL PSGYLIRPCE GGGSILHIVD HFDLEPWSVP EVLRSLYESS TLLAQRTTMA  360
ALRYLRQISQ EISQPNVSGW GRRPAALRAL SQRLSKGFNE AVNGFSDEGW SMLESDGIDD  420
VTLLVNSSPT KMMMTSSLPF SNGFTSMPSA VLCAKASMLL QNVPPSILLR FLREHRQEWA  480
DNSIDAYSAA AIKAGPCSLP IPRPGSFGGQ VILPLAHTIE NEEFMEVIKL ESLGHYQEDM  540
MMPADVFLLQ MCSGVDENAV ESCSELIFAP IDASFSDDAP IIPSGFRIIP LDTKSGVSPN  600
RTLDLASALD VGSRTAGDSC GSRGNTKSVM TIAFQLAFEM HMQENVASMA RQYVRSVIAS  660
VQRVALALSP SSHQLSSGLR PPPASPEAHT LARWISHSYR CYLGVELLKP NGTDLLKSLW  720
HHPDALMCCS LKALPPVFTF ANQAGLDMLE TTLVALQDIT LEKVFDNNGK KTFCSDFPQI  780
MQQGFMCIDG GICMSSMGRA VTYEKAVAWK VLNDDEDPHC LCFMFLNWSF I
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of vascular development. May promote differentiation of precambial and cambial cells. {ECO:0000269|PubMed:11402194, ECO:0000269|PubMed:15598805}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by miR165. {ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:8575317}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412920.0AJ441292.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 8 (hb-8 gene).
GenBankAY0996310.0AY099631.1 Arabidopsis thaliana HD-zip transcription factor (athb-8) (At4g32880) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018447492.10.0PREDICTED: homeobox-leucine zipper protein ATHB-8-like
SwissprotQ391230.0ATHB8_ARATH; Homeobox-leucine zipper protein ATHB-8
TrEMBLA0A3P6B5V00.0A0A3P6B5V0_BRAOL; Uncharacterized protein
STRINGBra011392.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM20222678
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32880.10.0homeobox gene 8
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Hategan L,Godza B,Kozma-Bognar L,Bishop GJ,Szekeres M
    Differential expression of the brassinosteroid receptor-encoding BRI1 gene in Arabidopsis.
    Planta, 2014. 239(5): p. 989-1001
    [PMID:24488524]
  3. Baima S, et al.
    Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module.
    Mol Plant, 2014. 7(6): p. 1006-1025
    [PMID:24777988]
  4. Kakehi J, et al.
    Mutations in ribosomal proteins, RPL4 and RACK1, suppress the phenotype of a thermospermine-deficient mutant of Arabidopsis thaliana.
    PLoS ONE, 2015. 10(1): p. e0117309
    [PMID:25625317]
  5. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  6. Liu S, et al.
    Expression of wild-type PtrIAA14.1, a poplar Aux/IAA gene causes morphological changes in Arabidopsis.
    Front Plant Sci, 2015. 6: p. 388
    [PMID:26082787]
  7. Yamaguchi YL, et al.
    Root-Knot and Cyst Nematodes Activate Procambium-Associated Genes in Arabidopsis Roots.
    Front Plant Sci, 2017. 8: p. 1195
    [PMID:28747918]
  8. Yamazaki K, et al.
    Suppression of DELLA signaling induces procambial cell formation in culture.
    Plant J., 2018. 94(1): p. 48-59
    [PMID:29383774]