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 Carubv10019989m
Common NameCARUB_v10019989mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family HD-ZIP
Protein Properties Length: 617aa    MW: 69236 Da    PI: 7.1128
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10019989mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox66.34.1e-2197152156
                      TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      r+k +++t++q++ +e+lF+++++p++++r++L+k+lgL  rqVk+WFqNrR++ k
  Carubv10019989m  97 RKKYHRHTTDQIRHMEALFKETPHPDEKQRQQLSKQLGLAPRQVKFWFQNRRTQIK 152
                      7999************************************************9877 PP
2START234.23.6e-732544811206
                      HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS.......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEE CS
            START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv......dsgealrasgvvdmvlallveellddkeqWdetla....kae 80 
                      e+a++a+ el+k+a+++ep+W +s+    e++n+de+l++f+++++      +++ea+r++g+v+m++++l ++++d++ qW+e++a    ka+
  Carubv10019989m 254 EVANRATLELQKMATSAEPLWLRSVetgrEILNYDEYLKEFPQAQAssfpgrKTIEASRDVGIVFMDAHKLAQSFMDVG-QWKEMFAclisKAA 346
                      68899**************************************999*********************************.************** PP

                      EEEEECTT.......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--..-TTSEE-EESSEEEEEEEECTCEEEEE CS
            START  81 tlevissg.......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe.sssvvRaellpSgiliepksnghskvt 165
                      t++vi++g       ga+qlm+ e+q+l+p+vp R+++fvR++rql+ ++w++vdvSv++e++++e ++s+ ++++lpSg++ie++snghskvt
  Carubv10019989m 347 TVDVIRQGegpsridGAIQLMFGEMQLLTPVVPtREVYFVRSCRQLSPEKWAVVDVSVSVEDNNTEkEASLLKCRKLPSGCIIEDTSNGHSKVT 440
                      ********************************************************************************************** PP

                      EEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
            START 166 wvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                      wveh d+++++++ l+rslv++gla+ga++wvatlq +ce+
  Carubv10019989m 441 WVEHLDVSASTVQPLFRSLVNTGLAFGARHWVATLQLHCER 481
                      ***************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.607.6E-2382148IPR009057Homeodomain-like
SuperFamilySSF466894.6E-2089155IPR009057Homeodomain-like
PROSITE profilePS5007117.81594154IPR001356Homeobox domain
SMARTSM003899.6E-1896158IPR001356Homeobox domain
PfamPF000462.1E-1897152IPR001356Homeobox domain
CDDcd000864.34E-1797152No hitNo description
PROSITE patternPS000270129152IPR017970Homeobox, conserved site
PROSITE profilePS5084843.177245484IPR002913START domain
SuperFamilySSF559619.16E-31248481No hitNo description
CDDcd088752.89E-102249480No hitNo description
PfamPF018523.6E-67254481IPR002913START domain
SMARTSM002343.9E-84254481IPR002913START domain
Gene3DG3DSA:3.30.530.201.6E-7295480IPR023393START-like domain
SuperFamilySSF559612.56E-9503597No hitNo description
PROSITE profilePS5084810.465530616IPR002913START domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009957Biological Processepidermal cell fate specification
GO:0010062Biological Processnegative regulation of trichoblast fate specification
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 617 aa     Download sequence    Send to blast
MSMAVEMSSK QQPTKDFFSS PALSLSLAGI FRNASSGSTN PEEDFLSRKV VDDEDRTVEM  60
SSENSGPTRS RSEEDLDGED HEEDEEEDGS KGNKRKRKKY HRHTTDQIRH MEALFKETPH  120
PDEKQRQQLS KQLGLAPRQV KFWFQNRRTQ IKAIQERHEN SLLKAELEKL REENKAMRES  180
FSKANSSCPN CGGGPDDLHL ENSKLKAELD KLRAALGRTP YPLQASCSED QEHRLGSLDF  240
YTGVFALEKS RIAEVANRAT LELQKMATSA EPLWLRSVET GREILNYDEY LKEFPQAQAS  300
SFPGRKTIEA SRDVGIVFMD AHKLAQSFMD VGQWKEMFAC LISKAATVDV IRQGEGPSRI  360
DGAIQLMFGE MQLLTPVVPT REVYFVRSCR QLSPEKWAVV DVSVSVEDNN TEKEASLLKC  420
RKLPSGCIIE DTSNGHSKVT WVEHLDVSAS TVQPLFRSLV NTGLAFGARH WVATLQLHCE  480
RLVFFMATNV PTKDSLGVTT LAGRKSVLKM AQRMTQSFYR AIAASSYHQW TKITTKTGQD  540
MRVSSRKNLH DPGEPTGVIV CASSSLWLPV SPTLLFDYFR DEARRHEWDA LSNGAHVQSI  600
ASLSKGQDRG NSVAIQ*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
19498RKRKK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor required for correct morphological development and maturation of trichomes as well as for normal development of seed coat mucilage. Regulates the frequency of trichome initiation and determines trichome spacing. {ECO:0000269|PubMed:11844112}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10019989m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by GEM. {ECO:0000269|PubMed:17450124}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3602940.0AF360294.1 Arabidopsis thaliana putative homeobox protein GLABRA2 (At1g79840) mRNA, complete cds.
GenBankBT0019560.0BT001956.1 Arabidopsis thaliana clone U09291 putative homeobox protein GLABRA2 (At1g79840) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023642973.10.0homeobox-leucine zipper protein GLABRA 2
SwissprotP466070.0HGL2_ARATH; Homeobox-leucine zipper protein GLABRA 2
TrEMBLR0GGD10.0R0GGD1_9BRAS; Uncharacterized protein
STRINGXP_006302014.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM123702731
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G79840.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Wu R,Citovsky V
    Adaptor proteins GIR1 and GIR2. I. Interaction with the repressor GLABRA2 and regulation of root hair development.
    Biochem. Biophys. Res. Commun., 2017. 488(3): p. 547-553
    [PMID:28526410]