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 Carubv10008485m
Common NameCARUB_v10008485mg
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: 687aa    MW: 76373.7 Da    PI: 6.4682
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10008485mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.23.2e-192879556
                     SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox  5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                     +++t++q+++Le+ F+++++p++++r +L+++lgL  rq+k+WFqNrR+++k
  Carubv10008485m 28 HRHTPHQIQRLESTFNECQHPDEKQRNQLSRELGLAPRQIKFWFQNRRTQKK 79
                     689**********************************************988 PP
2START151.28.7e-482184392206
                      HHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGG...CT-TT-SEEEEE CS
            START   2 laeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddke...qWdetlakaetl 82 
                      +a +a++el+++ + +ep+W +     e +n + +   f++s +        ++ea+r sgvv+ ++ +lv  l+d+ +    + + +a+ +tl
  Carubv10008485m 218 IAVTAMEELLRLLQTNEPLWITTEgcrEVLNLESYENLFPRSSSnggkkneLRMEASRSSGVVFTNALTLVDMLMDSVKsadFFPTIVAASKTL 311
                      6889**********************8777777776777766668899******************************99988999999***** PP

                      EEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE- CS
            START  83 evissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwveh 169
                      +vissg       al+lm  elq+lsp+v+ R+f ++Ry++q + g+w+i+ vS + +q++++     R+ ++pSg+li+++sng+skvtwveh
  Carubv10008485m 312 AVISSGfrgnhgDALHLMIEELQVLSPMVAtREFCVLRYCQQIEHGTWAIANVSYEFPQFVSQ----SRSYRFPSGCLIQDMSNGYSKVTWVEH 401
                      ***********9*************************************************95....56666********************** PP

                      EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
            START 170 vdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                      v+ +++ p h++++  v++gla+ga +w +tlqr ce+
  Carubv10008485m 402 VEFEEQEPiHEIFKDSVHKGLAFGAERWISTLQRMCER 439
                      ************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466893.8E-191181IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.607.2E-211375IPR009057Homeodomain-like
PROSITE profilePS5007117.752181IPR001356Homeobox domain
SMARTSM003894.1E-182285IPR001356Homeobox domain
PfamPF000467.6E-172879IPR001356Homeobox domain
CDDcd000862.68E-182882No hitNo description
PROSITE patternPS0002705679IPR017970Homeobox, conserved site
PROSITE profilePS5084848.2208442IPR002913START domain
SuperFamilySSF559614.12E-31209440No hitNo description
CDDcd088756.34E-104212438No hitNo description
SMARTSM002344.0E-34217439IPR002913START domain
PfamPF018527.5E-40218439IPR002913START domain
Gene3DG3DSA:3.30.530.201.7E-8248437IPR023393START-like domain
SuperFamilySSF559616.04E-19457677No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010091Biological Processtrichome branching
GO:0048497Biological Processmaintenance of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 687 aa     Download sequence    Send to blast
MNMEFFGDSQ IHDGSETDKK NKKKKRFHRH TPHQIQRLES TFNECQHPDE KQRNQLSREL  60
GLAPRQIKFW FQNRRTQKKA QHERADNCAL KEENDKIRCE NIAIREAIKH AICPNCGDSP  120
VNEDSYFDEQ KLRIENAQLR DELERVSSIA AKFIGRPISH LPPLLNPMHV SPLELFHSGP  180
SLDFDLLPGS CSSMALPSLP SQPNLVLSEM DKSLMTNIAV TAMEELLRLL QTNEPLWITT  240
EGCREVLNLE SYENLFPRSS SNGGKKNELR MEASRSSGVV FTNALTLVDM LMDSVKSADF  300
FPTIVAASKT LAVISSGFRG NHGDALHLMI EELQVLSPMV ATREFCVLRY CQQIEHGTWA  360
IANVSYEFPQ FVSQSRSYRF PSGCLIQDMS NGYSKVTWVE HVEFEEQEPI HEIFKDSVHK  420
GLAFGAERWI STLQRMCERF TEPATSSLDL GGVIPSPEGK RSIMRLAHRM VSNFCLSVGT  480
SNNTRSTVVS GLDEFAIRVT SHKSLHEPNG MVLCAATSFW LPNSPQNVFN FLKDERTRPQ  540
WDVLSNGNPV QEVANIANGS NPGNCISVLR GFNVSSSQNN MLILQESCID SSSAALVIYT  600
PVDLPALNIA MSGQDTSCIP ILPSGFAISP DGSSKGGGSL ITVGFQIMVS GLQPAKLNME  660
SMETVNNLIN TTVHHIKTTL NCPSTA*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as negative regulator of trichome branching in association with HDG11 (PubMed:16778018). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). Acts as positive regulator of SCL18/LAS expression (PubMed:25358340). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:25358340, ECO:0000269|PubMed:25564655}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10008485m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4934650.0AB493465.1 Arabidopsis thaliana At1g17920 mRNA for hypothetical protein, partial cds, clone: RAAt1g17920.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006306921.10.0homeobox-leucine zipper protein HDG12
SwissprotQ9LMT80.0HDG12_ARATH; Homeobox-leucine zipper protein HDG12
TrEMBLR0IBH00.0R0IBH0_9BRAS; Uncharacterized protein
STRINGXP_006306921.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17920.10.0homeodomain GLABROUS 12
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. Tian C, et al.
    An organ boundary-enriched gene regulatory network uncovers regulatory hierarchies underlying axillary meristem initiation.
    Mol. Syst. Biol., 2014. 10: p. 755
    [PMID:25358340]
  3. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]