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 Rsa1.0_04393.1_g00001.1
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: 721aa    MW: 80760.1 Da    PI: 6.785
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04393.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.22.9e-182779456
                             -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox  4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                              ++++++q+++Le++F+++++p+ ++r +L ++l+L+ +q+k+WFqN+R++ k
  Rsa1.0_04393.1_g00001.1 27 YHRHSNHQIQRLEAYFKECPHPDDSQRLKLGEELKLKPKQIKFWFQNKRTQTK 79
                             67899*********************************************988 PP
2START127.51.6e-402404583206
                              HHHHHHHHHHHHHHC-TT-EEEE.......EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S.. CS
                    START   3 aeeaaqelvkkalaeepgWvkss.......esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla.. 77 
                              + +a +e+++++  ee++W kss       ++++++++  k++  ++   ++e ++++ v +m++ +lv+ lld+  +W + +   
  Rsa1.0_04393.1_g00001.1 240 MVTAVTEVITLIRTEEQMWIKSSidgrliiDQKYYEKTFPKVSHFNSssARIESSKEVSVIPMDAKNLVNMLLDTE-KWANLFSti 324
                              678999*********************99999999999988855444889**************************.888888888 PP

                              ..EEEEEEEECTT....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEE CS
                    START  78 ..kaetlevissg....galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliep 156
                                +a+t+ v++s     ++  lm+ +l  lspl p R+f+++R+++ql++++wvi+dvS  + ++  e      + ++pSg+li+ 
  Rsa1.0_04393.1_g00001.1 325 vsEAKTIHVLESMdpqrNFSKLMYEQLHILSPLLPpREFMILRCCQQLEEDVWVIADVSYHQVASDFE---TPACSKRPSGCLIQA 407
                              8899999999887788*999*************999***************************99875...555778********* PP

                              ECTCEEEEEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                    START 157 ksnghskvtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                              ++nghskvtw+ehv++++++  h ++r l+  g   ga++w+atl+r ce+
  Rsa1.0_04393.1_g00001.1 408 LPNGHSKVTWIEHVEVNDKVRaHRIYRDLLCGGFGYGARRWTATLERMCER 458
                              ********************99***************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.604.4E-18782IPR009057Homeodomain-like
SuperFamilySSF466894.6E-17881IPR009057Homeodomain-like
PROSITE profilePS5007115.712181IPR001356Homeobox domain
SMARTSM003891.8E-162385IPR001356Homeobox domain
CDDcd000866.73E-162482No hitNo description
PfamPF000468.1E-162779IPR001356Homeobox domain
PROSITE profilePS5084839.893229461IPR002913START domain
SuperFamilySSF559614.81E-27230459No hitNo description
CDDcd088751.26E-90233457No hitNo description
SMARTSM002344.6E-27238458IPR002913START domain
Gene3DG3DSA:3.30.530.201.3E-6240423IPR023393START-like domain
PfamPF018525.9E-34240458IPR002913START domain
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: 721 aa     Download sequence    Send to blast
MASSRDSSSS DEHETSLNTS DGDKKIYHRH SNHQIQRLEA YFKECPHPDD SQRLKLGEEL  60
KLKPKQIKFW FQNKRTQTKT QSEKADNASL RTENMKIRRE NEAMQHALTT VTCPPCGGPP  120
LGQRERSPYL QKLQAQNARF REERDRLSNL VNQSEGHSNP NVNALVYPHG PPLYPPASNN  180
PHVAYGTSSN YLVEPPSLVG EPYSRERINI AQPPQALMPM LLQRFQPPSQ MEKMMMTEAM  240
VTAVTEVITL IRTEEQMWIK SSIDGRLIID QKYYEKTFPK VSHFNSSSAR IESSKEVSVI  300
PMDAKNLVNM LLDTEKWANL FSTIVSEAKT IHVLESMDPQ RNFSKLMYEQ LHILSPLLPP  360
REFMILRCCQ QLEEDVWVIA DVSYHQVASD FETPACSKRP SGCLIQALPN GHSKVTWIEH  420
VEVNDKVRAH RIYRDLLCGG FGYGARRWTA TLERMCERLS LYSVSDFPAT DYPGVVGTID  480
GRKSVMKLGE RMLKNFAWIL KMPGKAEFPQ QNVTNSSGIR IAVRVNEEVG QPAGLIVCAG  540
LSLSLPLAPL QVYNFLKSLE VRHQWDALCQ ASPVTEVARF VTGTDNKNCV NILKPSSETQ  600
NGDLMIIQDS FIDALGGMVV YAPVDLMTAL AAFSGNVDPS GIPILPSGFI ISSDGRPSAA  660
AELDGGLDDC KTLLTVAFQI LATGSTNFDE DQMNEWTTKV HTLVSSTIRR VKGMLNCDDG  720
Q
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
PlantRegMapRsa1.0_04393.1_g00001.1
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_018444485.10.0PREDICTED: homeobox-leucine zipper protein HDG10
SwissprotQ9FFI00.0HDG9_ARATH; Homeobox-leucine zipper protein HDG9
TrEMBLA0A3P6EAX30.0A0A3P6EAX3_BRAOL; Uncharacterized protein
STRINGBo9g161400.10.0(Brassica oleracea)
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]