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 Rsa1.0_03390.1_g00004.1
Organism
Raphanus sativus
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: 838aa    MW: 91976.4 Da    PI: 6.4632
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03390.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.72e-181775357
                             --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
                 Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                             k  ++t+eq+e+Le+l++ +++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Rsa1.0_03390.1_g00004.1 17 KYVRYTPEQVEALERLYHDCPKPSSIRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 75
                             5679*****************************************************97 PP
2START1662.6e-521613692205
                              HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECT CS
                    START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetleviss 87 
                              +aee+++e+++ka+ ++  Wv+++ +++g++++ +++ s+++ g a+ra+g+v  +++  v+e+++d++ W + ++++++++v+ +
  Rsa1.0_03390.1_g00004.1 161 IAEETLAEFLSKATGTAVEWVQMPGMKPGPDSIGIISISHGCAGVAARACGLVGLEPT-RVAEIVKDRPSWFRECRAVDVMNVLPT 245
                              7899******************************************************.7777777777****************9 PP

                              T..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEE CS
                    START  88 g..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwv 167
                              +  g+++l +++l+a+++l+p Rdf+ +Ry+  l++g++v++++S+ s q+ p+    +++vRae+lpSg+li+p+++g+s +++v
  Rsa1.0_03390.1_g00004.1 246 AngGTIELLYMQLYAPTTLAPpRDFWLLRYTSVLEDGSLVVCERSLKSIQNGPSmplVQHFVRAEMLPSGYLIRPCDGGGSIIHIV 331
                              999**************************************************999999*************************** PP

                              E-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                    START 168 ehvdlkgrlphwllrslvksglaegaktwvatlqrqce 205
                              +h+dl++ +++++lr+l++s  + ++kt++a+l+++++
  Rsa1.0_03390.1_g00004.1 332 DHMDLEACSVPEVLRPLYESPKVLAQKTTMAALRQLKQ 369
                              **********************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003891.2E-151480IPR001356Homeobox domain
SuperFamilySSF466897.7E-171680IPR009057Homeodomain-like
CDDcd000861.31E-161777No hitNo description
PfamPF000465.8E-161875IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.5E-181975IPR009057Homeodomain-like
PROSITE profilePS5007115.1272076IPR001356Homeobox domain
CDDcd146861.14E-669108No hitNo description
PROSITE profilePS5084824.775151379IPR002913START domain
CDDcd088756.05E-73155371No hitNo description
SuperFamilySSF559611.37E-35160372No hitNo description
SMARTSM002341.6E-36160370IPR002913START domain
Gene3DG3DSA:3.30.530.206.8E-20160342IPR023393START-like domain
PfamPF018529.9E-50161369IPR002913START domain
PfamPF086704.6E-52695837IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009965Biological Processleaf morphogenesis
GO:0010014Biological Processmeristem initiation
GO:0010075Biological Processregulation of meristem growth
GO:0010087Biological Processphloem or xylem histogenesis
GO:0048263Biological Processdetermination of dorsal identity
GO:0080060Biological Processintegument development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 838 aa     Download sequence    Send to blast
MAMSCKDGKM GCLDNGKYVR YTPEQVEALE RLYHDCPKPS SIRRQQLIRE CPILSNIEPK  60
QIKVWFQNRR CREKQRKEAS RLQAVNRKLT AMNKLLMEEN DRLQKQVSQL VHENSYFRQH  120
TPNPTLPAKD TSCESVVTSG QHQLASHNPP RDASPAGLLS IAEETLAEFL SKATGTAVEW  180
VQMPGMKPGP DSIGIISISH GCAGVAARAC GLVGLEPTRV AEIVKDRPSW FRECRAVDVM  240
NVLPTANGGT IELLYMQLYA PTTLAPPRDF WLLRYTSVLE DGSLVVCERS LKSIQNGPSM  300
PLVQHFVRAE MLPSGYLIRP CDGGGSIIHI VDHMDLEACS VPEVLRPLYE SPKVLAQKTT  360
MAALRQLKQI AQEVSQTNSN VNGWGRRPAA LRALSQRLSR GFNESVNSFT DEGWSVIGDS  420
MDDVTITVNS SPDKLMGLNL TFSNGFAPPV SNVVLCAKAS MLLQNVPPGI LLRFLREHRS  480
EWADNNIDAY LAAAVKVGPC SARVGGFGGQ VILPLAHTIE HEESMEVIKL EGLGHSPEDA  540
IIPRDIFLLQ LCSGMDENAV GTCAELIFAP IDASFADDAP LLPSGFRIIP LDSTKEVSSP  600
NRTLDLASAL EIGSAGTTKA STDQSGNSAC ARSVMTIAFE FGIESHMQEH VASMARQYVR  660
GIISSVQRVA LALSPSHISS QVGLRTPLGT PEAQTLARWI CQSYRCYMGV ELLKSTSEGN  720
ESVLKNLWHH TDAIVCCSMK AMPVFTFANQ AGLDMLETTL VSLQDISLEK IFDDNGRKTL  780
CSEFPQIMQQ GFASLQGGIC LSSMGRPVSY ERAVAWKVLN EEENAHCISF VFINWSFV
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of meristem development to promote lateral organ formation. May regulates procambial and vascular tissue formation or maintenance, and vascular development in inflorescence stems. {ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:15705957, ECO:0000269|PubMed:16617092}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00200DAPTransfer from AT1G52150Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03390.1_g00004.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by miR165 and miR166. {ECO:0000269|PubMed:15773855, ECO:0000269|PubMed:16033795, ECO:0000269|PubMed:16617092, ECO:0000269|PubMed:17237362}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4394490.0AJ439449.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein (ATHB-15 gene).
GenBankAY0605560.0AY060556.1 Arabidopsis thaliana At1g52150/F5F19_21 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018436929.10.0PREDICTED: homeobox-leucine zipper protein ATHB-15-like
SwissprotQ9ZU110.0ATB15_ARATH; Homeobox-leucine zipper protein ATHB-15
TrEMBLA0A078J7G20.0A0A078J7G2_BRANA; BnaA06g01940D protein
STRINGBra018948.1-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
AT1G52150.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. 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]