PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC3081_p3
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: 842aa    MW: 92295.9 Da    PI: 6.4655
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3081_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox573.4e-181977357
                --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
    Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                k  ++t+eq+e+Le+++ ++++p+  +r++L +++    +++ +q+kvWFqNrR +ek+
  RrC3081_p3 19 KYVRYTPEQVEALERVYTECPKPTSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 77
                5678*****************************************************97 PP
2START189.61.6e-591683762205
                 HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEEEEXX CS
       START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlmvael 98 
                 +aeea++e+++ka+ ++  Wv++  +++g++++ +++ s+++sg a+ra+g+v  +++  v+e+l+d++ W ++++ ++tl v+  g  g+++l+++++
  RrC3081_p3 168 IAEEALAEFLSKATGTAVDWVQMIGMKPGPDSIGIVSISRNCSGIAARACGLVSLEPM-KVAEILKDRQSWLRDCRCVDTLSVVPAGngGTIELIYTQM 265
                 799*******************************************************.8888888888****************9999********** PP

                 TTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHH CS
       START  99 qalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaega 193
                 +a+++l++ Rdf+++Ry+ +l++g++v++++S++s++  p+   sss+vRae++pSg+li+p+++g+s v++v+hvdl+++++++++r+l++s+ + ++
  RrC3081_p3 266 YAPTTLAAaRDFWTLRYSTCLEDGSHVVCERSLTSKTGGPTgppSSSFVRAEMRPSGFLIRPCEGGGSIVHIVDHVDLDAWSVPEVMRPLYESSKILAQ 364
                 *************************************9999999******************************************************* PP

                 HHHHHHTXXXXX CS
       START 194 ktwvatlqrqce 205
                 k++va+l++ ++
  RrC3081_p3 365 KMTVAALRHVRQ 376
                 *******98765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.3051478IPR001356Homeobox domain
SMARTSM003898.1E-151682IPR001356Homeobox domain
SuperFamilySSF466891.24E-161882IPR009057Homeodomain-like
CDDcd000864.93E-161979No hitNo description
PfamPF000461.1E-152077IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.4E-182177IPR009057Homeodomain-like
CDDcd146865.40E-671110No hitNo description
PROSITE profilePS5084826.662158386IPR002913START domain
CDDcd088753.43E-74162377No hitNo description
Gene3DG3DSA:3.30.530.203.0E-21166372IPR023393START-like domain
SuperFamilySSF559612.06E-34167378No hitNo description
SMARTSM002348.3E-63167377IPR002913START domain
PfamPF018521.0E-56168376IPR002913START domain
SuperFamilySSF559611.65E-5415492No hitNo description
SuperFamilySSF559611.65E-5524596No hitNo description
PfamPF086705.8E-49696841IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010072Biological Processprimary shoot apical meristem specification
GO:0080060Biological Processintegument development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 842 aa     Download sequence    Send to blast
MMVHTMHRES PDKGLDSGKY VRYTPEQVEA LERVYTECPK PTSLRRQQLI RECPILSNIE  60
PKQIKVWFQN RRCREKQRKE AARLQTVNRK LNAMNKLLME ENDRLQKQVS HLVYENGHMK  120
HQLHTASGTT TDNSCESVVV SGQQHQQQNP NHQHLQRDAN NPAGLLSIAE EALAEFLSKA  180
TGTAVDWVQM IGMKPGPDSI GIVSISRNCS GIAARACGLV SLEPMKVAEI LKDRQSWLRD  240
CRCVDTLSVV PAGNGGTIEL IYTQMYAPTT LAAARDFWTL RYSTCLEDGS HVVCERSLTS  300
KTGGPTGPPS SSFVRAEMRP SGFLIRPCEG GGSIVHIVDH VDLDAWSVPE VMRPLYESSK  360
ILAQKMTVAA LRHVRQITQE TSGEVEYGGG RQPAVLRTFS QKLCRGFNDA VNGFVDDGWS  420
PLGSDGAEDI TVMINLSPGK FGGSQFLPSF GSGVLCAKAS MLLENVPPAV LVRFLREHRS  480
EWADYGVDAY AAASLRASPF TVPCARAGGF PSNQVILPLA QTVEHEEFLE VVRLEGHAYS  540
PEDMGLARDM YLLQLCSSVD ENVVGGCAQL VFAPIDESFA DDAPLLPCGF RVIPLEYKST  600
VNGASANRTL DLASALEGST RQGGEGDTNG CNFRSVVTIA FQFTFDNHTR DNVASMARQY  660
VRSIVGSIQR VALAIAPRPG SCISPISGPS SPEALTLARW ISRSYRVHTG VDLFGSASQT  720
SGDTLLRQLW NHTDAICCCS LKTNASPVFT FANQTGLDML ETTLVALQDI MLDKTLDESG  780
RKALCSEFPK IMQQGYAHLP AGVCASSMGR LVAYEQATVW KVLDDDESNH CLAFMFVNWS  840
FV
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15328016, ECO:0000269|PubMed:15598805}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR165 and miR166. {ECO:0000269|PubMed:14999284, ECO:0000269|PubMed:16033795, ECO:0000269|PubMed:17237362}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412910.0AJ441291.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 14 (ATHB-14 gene).
GenBankAY0997910.0AY099791.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
GenBankBT0003350.0BT000335.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009143747.10.0PREDICTED: homeobox-leucine zipper protein ATHB-14
SwissprotO042910.0ATB14_ARATH; Homeobox-leucine zipper protein ATHB-14
TrEMBLA0A078GYV70.0A0A078GYV7_BRANA; BnaA05g09120D protein
STRINGBra005398.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM42562653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G34710.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. 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]
  3. Müller CJ, et al.
    PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis.
    Plant Physiol., 2016. 170(2): p. 956-70
    [PMID:26637548]
  4. Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS
    CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules.
    Development, 2016. 143(3): p. 422-6
    [PMID:26700684]
  5. Kim ES, et al.
    HAWAIIAN SKIRT regulates the quiescent center-independent meristem activity in Arabidopsis roots.
    Physiol Plant, 2016. 157(2): p. 221-33
    [PMID:26968317]
  6. Husbands AY,Aggarwal V,Ha T,Timmermans MC
    In Planta Single-Molecule Pull-Down Reveals Tetrameric Stoichiometry of HD-ZIPIII:LITTLE ZIPPER Complexes.
    Plant Cell, 2016. 28(8): p. 1783-94
    [PMID:27385814]
  7. Di Ruocco G, et al.
    Differential spatial distribution of miR165/6 determines variability in plant root anatomy.
    Development, 2018.
    [PMID:29158439]
  8. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  9. Hashimoto K,Miyashima S,Sato-Nara K,Yamada T,Nakajima K
    Functionally Diversified Members of the MIR165/6 Gene Family Regulate Ovule Morphogenesis in Arabidopsis thaliana.
    Plant Cell Physiol., 2018. 59(5): p. 1017-1026
    [PMID:29462472]