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_01548.1_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: 825aa    MW: 91654 Da    PI: 5.1367
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01548.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox65.95.4e-21113168156
                              TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              +++ +++t+ q++e+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k
  Rsa1.0_01548.1_g00004.1 113 KKRYHRHTDRQIQEMEALFKENPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 168
                              688899***********************************************998 PP
2START140.41.8e-443255512206
                              HHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS................SCEEEEEEEECCSCHHHHHHHH CS
                    START   2 laeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv...............dsgealrasgvvdmvlallvee 64 
                              +a ++ qel k+ + eep+Wvk            +n++e+                        ++ ea++a +vv+m++ +lv  
  Rsa1.0_01548.1_g00004.1 325 FAVSCVQELTKMCDIEEPLWVKKKpdkigdeiLCLNEEEY--------MrlfpwpmgnhnnkgdFRREASKANAVVIMNSITLVDA 402
                              67899*******************5544443333455555........34455556689999999********************* PP

                              HCCCGGCT-TT-S....EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--.- CS
                    START  65 llddkeqWdetla....kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppes 139
                              +l+   +W+e++     +a+t++ issg     g l lm+aelq+lsplvp R+ +f+Ry +q  + g w+ivd  +ds  +++  
  Rsa1.0_01548.1_g00004.1 403 FLNAD-KWSEMFCsivaRAKTVQMISSGvsgasGSLLLMYAELQVLSPLVPtREAYFLRYVEQnAENGNWAIVDFPIDSFHDQNIP 487
                              *****.******99999**********************************************99**************9999987 PP

                              TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                    START 140 ssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                              +++ R   +pSg++i++++ng+s+v wvehv + +r++h+ +   vksg+a+ga++wv  l+rqce+
  Rsa1.0_01548.1_g00004.1 488 HEYKR---TPSGCIIQDMPNGYSQVKWVEHVVVVERHVHETFAEYVKSGMAFGASRWVDVLERQCER 551
                              88888...*********************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466893.17E-20104171IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.608.0E-22107176IPR009057Homeodomain-like
PROSITE profilePS5007117.799110170IPR001356Homeobox domain
SMARTSM003892.1E-19111174IPR001356Homeobox domain
CDDcd000866.59E-20113171No hitNo description
PfamPF000461.7E-18113168IPR001356Homeobox domain
PROSITE patternPS000270145168IPR017970Homeobox, conserved site
PROSITE profilePS5084840.089315554IPR002913START domain
SuperFamilySSF559613.02E-27316553No hitNo description
CDDcd088754.91E-91319550No hitNo description
SMARTSM002343.0E-24324551IPR002913START domain
PfamPF018521.5E-36325551IPR002913START domain
SuperFamilySSF559615.49E-13588802No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048497Biological Processmaintenance of floral organ identity
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 825 aa     Download sequence    Send to blast
MLTIGEGSVL TSDNIFASPP PPPASSSPAT IQNPNFNFIP FNSFSSIIPE EHGMMSMSMM  60
MMMGDETVEE MMDNGSVGGS FGSGSEQPED PKSGNEFDVN ELRDDEQPPP AKKKRYHRHT  120
DRQIQEMEAL FKENPHPDDK QRQRLSHELG LKPRQVKFWF QNRRTQMKAQ QDRAENVMLR  180
ADNDNLKLEN SQLQAELQCL SCPSCGGPTV IGDIPFNELH IENCRLREEL DRLCCIASRY  240
TDRPMQSMPS SQPLINPASE LPHHPPSLEL DMSAYAGNFP EHPCPDLTSL PPQNTACFFP  300
NQTNNNSNNS NMLLADEEKV IAMEFAVSCV QELTKMCDIE EPLWVKKKPD KIGDEILCLN  360
EEEYMRLFPW PMGNHNNKGD FRREASKANA VVIMNSITLV DAFLNADKWS EMFCSIVARA  420
KTVQMISSGV SGASGSLLLM YAELQVLSPL VPTREAYFLR YVEQNAENGN WAIVDFPIDS  480
FHDQNIPHEY KRTPSGCIIQ DMPNGYSQVK WVEHVVVVER HVHETFAEYV KSGMAFGASR  540
WVDVLERQCE RMASLMARNI TDLGVIRSAE ARRNMMRLSQ RMVKTFCVNI STSYGQSWTA  600
LSETTKDTVR ITTRKVCEPG QPTGVVLVAV STTWLPFSHF KVFDLLRDQH HHSLLEVLFS  660
GNSPHEVAHI ANGSHPGNCI SLLRINVASN SWHNVELMLQ ESCVDNSGGL IVYSSVNVDS  720
IQHVMNGEDP SSIPLLPLGF SVVPANDLGE VEGISVNLLP PPSCLLTVGI QVLASNVPTA  780
KPNLSTVTTV NNHLCSIVNQ ITSVLSGTVS PTIASSAAAA KQDVV
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01548.1_g00004.1
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_018455882.10.0PREDICTED: homeobox-leucine zipper protein HDG5
SwissprotQ9FJS20.0HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBLA0A397XV880.0A0A397XV88_BRACM; Uncharacterized protein
STRINGBra017519.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43562548
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46880.10.0homeobox-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]
  2. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]