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 Carubv10004127m
Common NameCARUB_v10004127mg
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: 835aa    MW: 92150.4 Da    PI: 6.1813
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10004127mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.89.3e-191573357
                     --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
         Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                     k  ++t+eq+e+Le+l++ +++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Carubv10004127m 15 KYVRYTPEQVEALERLYNDCPKPSSMRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 73
                     5679*****************************************************97 PP
2START193.97.8e-611603682205
                      HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEE CS
            START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galql 93 
                      +a e+++e+++ka+ ++  Wv+++ +++g++++ +++ s++++g a+ra+g+v  +++  v+e+l+dk++W++++++ ++++v+s++  g+l+l
  Carubv10004127m 160 IADETLTEFISKATGTAVEWVQMPGMKPGPDSIGIVAISHGCTGIAARACGLVGLDPT-RVAEILKDKPCWSRDCRSLDIVNVLSTAngGTLEL 252
                      68899*****************************************************.9999****99*****************999***** PP

                      EEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHH CS
            START  94 mvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrs 183
                      ++++l+a+++l+p Rdf+++Ry+  +++g++vi+++S++++q+ p+   s+++vRae lpSg+li+p+++g+s +++v+h+dl+ ++++++lrs
  Carubv10004127m 253 IYMQLYAPTTLAPaRDFWMLRYTSVMEDGSLVICERSLNNTQNGPSmppSPHFVRAEILPSGYLIRPCEGGGSILHIVDHFDLEPWSVPEVLRS 346
                      ********************************************99999********************************************* PP

                      HHHHHHHHHHHHHHHHTXXXXX CS
            START 184 lvksglaegaktwvatlqrqce 205
                      l++s++  +++t++a+l+++++
  Carubv10004127m 347 LYESSTLLAQRTTMAALRYLRQ 368
                      *****************99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.6941074IPR001356Homeobox domain
SMARTSM003891.7E-151278IPR001356Homeobox domain
SuperFamilySSF466891.8E-161478IPR009057Homeodomain-like
CDDcd000861.19E-161575No hitNo description
PfamPF000462.7E-161673IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.5E-181773IPR009057Homeodomain-like
CDDcd146861.14E-667106No hitNo description
PROSITE profilePS5084827.25150378IPR002913START domain
CDDcd088751.99E-81154369No hitNo description
Gene3DG3DSA:3.30.530.202.1E-24158364IPR023393START-like domain
SuperFamilySSF559611.37E-36159370No hitNo description
SMARTSM002343.1E-42159369IPR002913START domain
PfamPF018523.1E-58160368IPR002913START domain
PfamPF086704.5E-45691833IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008284Biological Processpositive regulation of cell proliferation
GO:0009733Biological Processresponse to auxin
GO:0010067Biological Processprocambium histogenesis
GO:0010072Biological Processprimary shoot apical meristem specification
GO:0010089Biological Processxylem development
GO:0045597Biological Processpositive regulation of cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 835 aa     Download sequence    Send to blast
MGGGSNNSHN MDNGKYVRYT PEQVEALERL YNDCPKPSSM RRQQLIRECP ILSNIEPKQI  60
KVWFQNRRCR EKQRKEASRL QAVNRKLTAM NKLLMEENDR LQKQVSHLVY ENSYFRQHPQ  120
NQGNLATTDT SCESVVTSGQ HQLTPQHQPR DASPAGLLSI ADETLTEFIS KATGTAVEWV  180
QMPGMKPGPD SIGIVAISHG CTGIAARACG LVGLDPTRVA EILKDKPCWS RDCRSLDIVN  240
VLSTANGGTL ELIYMQLYAP TTLAPARDFW MLRYTSVMED GSLVICERSL NNTQNGPSMP  300
PSPHFVRAEI LPSGYLIRPC EGGGSILHIV DHFDLEPWSV PEVLRSLYES STLLAQRTTM  360
AALRYLRQIS QEISQPNVTG WGRRPAALRA LSQRLSKGFN EAVNGFSDEG WSMLESDGID  420
DVTLLVNSSP TKMMMTSSLP FANGFTSMPS AVLCAKASML LQNVPPSILL RFLREHRQEW  480
ADNSIDAYSA AAIKAGPCSL PIPRPGSFGG QVILPLAHTI ENEEFMEVIK LESLGHYQED  540
MMMPADIFLL QMCSGVDENA VESCAELIFA PIDASFSDDA PIIPSGFRII PLDSKSEGLS  600
PNRTLDLASA LDVGSRTAGD SCGSRGNTKS VMTIAFQLAF EMHMQENVAS MARQYVRSVI  660
ASVQRVALAL SPSSHQLSGL RPPPASPEAH TLARWISHSY RCYLGVDLLK PHGTDLLKSL  720
WYHPDAVMCC SLKALPPVFT FANQAGLDML ETTLVALQDI TLEKIFDNNN GKKTLCSDHF  780
PQIMQQGFMC MDGGVSMSSM GRAVTYEKAV AWKVLNDDED PHCICFMFLN WSFI*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of vascular development. May promote differentiation of precambial and cambial cells. {ECO:0000269|PubMed:11402194, ECO:0000269|PubMed:15598805}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10004127m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by miR165. {ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:8575317}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412920.0AJ441292.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 8 (hb-8 gene).
GenBankAY0996310.0AY099631.1 Arabidopsis thaliana HD-zip transcription factor (athb-8) (At4g32880) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006283109.10.0homeobox-leucine zipper protein ATHB-8
SwissprotQ391230.0ATHB8_ARATH; Homeobox-leucine zipper protein ATHB-8
TrEMBLR0F3010.0R0F301_9BRAS; Uncharacterized protein
STRINGXP_006283109.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM20222678
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32880.10.0homeobox gene 8
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Hategan L,Godza B,Kozma-Bognar L,Bishop GJ,Szekeres M
    Differential expression of the brassinosteroid receptor-encoding BRI1 gene in Arabidopsis.
    Planta, 2014. 239(5): p. 989-1001
    [PMID:24488524]
  3. Baima S, et al.
    Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module.
    Mol Plant, 2014. 7(6): p. 1006-1025
    [PMID:24777988]
  4. Kakehi J, et al.
    Mutations in ribosomal proteins, RPL4 and RACK1, suppress the phenotype of a thermospermine-deficient mutant of Arabidopsis thaliana.
    PLoS ONE, 2015. 10(1): p. e0117309
    [PMID:25625317]
  5. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  6. Liu S, et al.
    Expression of wild-type PtrIAA14.1, a poplar Aux/IAA gene causes morphological changes in Arabidopsis.
    Front Plant Sci, 2015. 6: p. 388
    [PMID:26082787]
  7. Yamaguchi YL, et al.
    Root-Knot and Cyst Nematodes Activate Procambium-Associated Genes in Arabidopsis Roots.
    Front Plant Sci, 2017. 8: p. 1195
    [PMID:28747918]
  8. Yamazaki K, et al.
    Suppression of DELLA signaling induces procambial cell formation in culture.
    Plant J., 2018. 94(1): p. 48-59
    [PMID:29383774]