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 RrC5826_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: 657aa    MW: 72680.5 Da    PI: 7.2515
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5826_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox651.1e-2050105156
                 TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                 +++ +++t++q++eLe++F+++++p++++r +L+++l+L+ rqVk+WFqNrR++ k
  RrC5826_p3  50 KKRYHRHTPQQIQELESVFKECPHPDEKQRLDLSRRLNLDSRQVKFWFQNRRTQLK 105
                 688999**********************************************9987 PP
2START154.31e-4823240943206
                 SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEE CS
       START  43 dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSv 130
                  ++ea++++g+v+ ++  lve+l+d+  +W e+++    + +t e issg      gal+lm+aelq+lsplvp R ++f+R+++q+ +g+w++vdvS+
  RrC5826_p3 232 NRTEASKEVGIVIINSLALVETLMDSE-RWAEMFPcmiaRNSTKEIISSGmggtrnGALHLMQAELQLLSPLVPvRQVTFLRFCKQHAEGVWAVVDVSI 329
                 4789***********************.*********************************************************************** PP

                 E-TTS--.-TTSEE....-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
       START 131 dseqkppesssvvR....aellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                 d  +++  s+s++R    +++lpSg+l+++++ng+skvtw++h+++++  +h l+r+lv+sgla+g k+w ++lqrqce+
  RrC5826_p3 330 DRISDRGGSASSARsslsCRRLPSGCLVHDMPNGYSKVTWIDHTEYDETNIHHLYRPLVRSGLAFGSKRWISALQRQCES 409
                 *999998866666655559***********************************************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.7E-2122108IPR009057Homeodomain-like
SuperFamilySSF466891.17E-2035107IPR009057Homeodomain-like
PROSITE profilePS5007117.60547107IPR001356Homeobox domain
SMARTSM003895.0E-1948111IPR001356Homeobox domain
PfamPF000462.7E-1850105IPR001356Homeobox domain
CDDcd000861.24E-1850107No hitNo description
PROSITE patternPS00027082105IPR017970Homeobox, conserved site
SMARTSM002347.3E-30191409IPR002913START domain
SuperFamilySSF559612.47E-23230409No hitNo description
PfamPF018521.0E-41232409IPR002913START domain
CDDcd088756.89E-84233408No hitNo description
PROSITE profilePS5084831.685235412IPR002913START domain
SuperFamilySSF559611.79E-20435649No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 657 aa     Download sequence    Send to blast
NNGGEVGRTG ESFEVSVARR SPESRSGSDH AEALSGDDDL DASDRPLKKK KRYHRHTPQQ  60
IQELESVFKE CPHPDEKQRL DLSRRLNLDS RQVKFWFQNR RTQLKTQIER HENSLLRQEN  120
DKLRAENMSV REAMRHPMCS HCGGSAVLGE ISLEEHQLRI ENSRLKDELD RLCALAGKFI  180
NRSDEAVSHH LPNSPLKLGV GAKNVYDGGG FTLVPSGFEI SPFFSGLEAP VNRTEASKEV  240
GIVIINSLAL VETLMDSERW AEMFPCMIAR NSTKEIISSG MGGTRNGALH LMQAELQLLS  300
PLVPVRQVTF LRFCKQHAEG VWAVVDVSID RISDRGGSAS SARSSLSCRR LPSGCLVHDM  360
PNGYSKVTWI DHTEYDETNI HHLYRPLVRS GLAFGSKRWI SALQRQCESL TILMSSPNKP  420
TPAISSIGKK SMLKLAQRMT ENFCRGVCAS SSQKWSKLDI GNIDEDVRIM TRKNVDDSGE  480
PPGILLSAAT SVWVPVSPRR LFDFLRDELM RSEWDILSNG GPMQEIANIF KGQDHSNSVS  540
LLRSTAMNAS QSSMLILQET SIDASGATVV YAPVDIPAMH SVMNGGDSAY VALLPSGFAI  600
LPDVQGTEET GSLFTVAFQI LVNSLPTAKL NVESIETVSN LISCTVQKIR AALRCDK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds to the DNA sequence 5'-GCATTAAATGC-3'. {ECO:0000269|PubMed:16778018}.
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_012482742.10.0PREDICTED: homeobox-leucine zipper protein ANTHOCYANINLESS 2-like isoform X2
SwissprotQ9LTK30.0HDG7_ARATH; Homeobox-leucine zipper protein HDG7
TrEMBLA0A078G2K70.0A0A078G2K7_BRANA; BnaC04g04470D protein
STRINGBostr.25993s0196.1.p0.0(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49128149
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G52170.10.0homeodomain GLABROUS 7
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]