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 RrC3092_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: 759aa    MW: 83700.8 Da    PI: 6.4197
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3092_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.76.4e-2151106156
                 TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                 +++ +++t++q++eLe++F+++++p++++r eL+k+l L++rqVk+WFqNrR+++k
  RrC3092_p1  51 KKRYHRHTPQQIQELESMFKECPHPDEKQRLELSKRLCLETRQVKFWFQNRRTQMK 106
                 688999***********************************************999 PP
2START144.78.5e-462394152163
                 HHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT.. CS
       START   2 laeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg.. 88 
                 la++a++elvk+a+++ep+Wvks     +++n++e++++f+++k     +ea+rasg+v+ ++  lve+l+d+  +W+e+++    + +t++vi+ g  
  RrC3092_p1 239 LALTAMDELVKLAQSDEPLWVKSLdgerDELNQEEYVRTFSSAKPngLVTEASRASGMVIINSLALVETLMDSD-RWTEMFPcivaRSTTTDVITGGma 336
                 6899************************************99999999**************************.************************ PP

                 ....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--..-TTSEE-EESSEEEEEEEECTCEEE CS
       START  89 ....galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe.sssvvRaellpSgiliepksnghsk 163
                     galqlm+aelq+lsplvp R++ f+R+++q+ +g+w++vdvS+d  ++++  s+ ++R  +lpSg++++++sng+sk
  RrC3092_p1 337 gtrnGALQLMNAELQVLSPLVPvRNVNFLRFCKQHAEGVWAVVDVSIDTVRDNSGgSAVIIR--RLPSGCVVQDMSNGYSK 415
                 ******************************************************87777777..***************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466899.84E-2135108IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.7E-2238108IPR009057Homeodomain-like
PROSITE profilePS5007117.28148108IPR001356Homeobox domain
SMARTSM003899.9E-1849112IPR001356Homeobox domain
CDDcd000861.36E-1851108No hitNo description
PfamPF000461.9E-1851106IPR001356Homeobox domain
PROSITE patternPS00027083106IPR017970Homeobox, conserved site
PROSITE profilePS5084832.15229415IPR002913START domain
CDDcd088751.01E-84233415No hitNo description
SuperFamilySSF559619.34E-22233415No hitNo description
SMARTSM002347.5E-21238462IPR002913START domain
PfamPF018524.4E-39239415IPR002913START domain
SuperFamilySSF559612.2E-21520743No 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: 759 aa     Download sequence    Send to blast
MRNNNDSFDG SGNKNRRSRE EEHESISGSD NVEGISGEDQ DAADDDKPPK KKRYHRHTPQ  60
QIQELESMFK ECPHPDEKQR LELSKRLCLE TRQVKFWFQN RRTQMKTQLE RHENALLRQE  120
NDKLRAENMS ILESMRNPTC NICGGPAMLG DFSIEEHHLR IENARLKDEL DRVFNLTGKF  180
LGHQNNINHH TSSLDLAVGT NNNNNNVGNF SFPPDFNGCL PPQPTVINGV DQRSVLLDLA  240
LTAMDELVKL AQSDEPLWVK SLDGERDELN QEEYVRTFSS AKPNGLVTEA SRASGMVIIN  300
SLALVETLMD SDRWTEMFPC IVARSTTTDV ITGGMAGTRN GALQLMNAEL QVLSPLVPVR  360
NVNFLRFCKQ HAEGVWAVVD VSIDTVRDNS GGSAVIIRRL PSGCVVQDMS NGYSKDLVSG  420
LFRSRGLSTQ STTRTKSTTC TGHCFGQLLV LARKDGSLHF RDNASVWPSS CPPPLHLTTT  480
HVRFLFLTLS LYVLLLNVFY ELCGSKTFDV CKKTAISPGG RKSMLKLAQR MTSNFCSGIS  540
APSVHSWSKL TVGNVDPDVR IMTRKSVDDP SEAPGIVLSA ATSVWLPASP QRLFDFLRNE  600
RMRCEWDILS NGGPMQEMAH IAKGQDQGNS VSLLRSNPMN ANQSSMLIIQ ETCNDASGAM  660
VVYAPVDIPA MHVVMNGGDS SYVALLPSGF AVLPDGGFDG GSRDGEQCPV GGGSLLTVAF  720
QILVNNLPTA KLTVESVETV NNLISCTVQK IRTALQCEN
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of the tissue-specific accumulation of anthocyanins and in cellular organization of the primary root. {ECO:0000269|PubMed:10402424}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3532530.0AK353253.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-28-B24.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018453129.10.0PREDICTED: homeobox-leucine zipper protein ANTHOCYANINLESS 2-like
SwissprotQ0WV120.0ANL2_ARATH; Homeobox-leucine zipper protein ANTHOCYANINLESS 2
TrEMBLA0A3P6D9390.0A0A3P6D939_BRAOL; Uncharacterized protein
STRINGBostr.10064s0036.1.p0.0(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112827105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G00730.10.0HD-ZIP family protein
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]