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 Carubv10022629m
Common NameCARUB_v10022629mg
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: 847aa    MW: 92422 Da    PI: 6.2662
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10022629mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.42.4e-181977357
                     --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
         Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                     k  ++t+eq+e+Le+++ ++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Carubv10022629m 19 KYVRYTPEQVEALERVYTECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 77
                     5678*****************************************************97 PP
2START191.15.4e-601683762205
                      HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEE CS
            START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galql 93 
                      +aeea++e+++ka+ ++  Wv++  +++g++++ +++ s+++sg a+ra+g+v  +++  v+e+l+d++ W ++++ ++tl vi  g  g+++l
  Carubv10022629m 168 IAEEALAEFLSKATGTAVDWVQMIGMKPGPDSIGIVAISRNCSGIAARACGLVSLEPM-KVAEILKDRPSWLRDCRCVDTLSVIPAGngGTIEL 260
                      799*******************************************************.8888888888*****************999***** PP

                      EEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHH CS
            START  94 mvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrs 183
                      ++++++a+++l++ Rdf+++Ry+ +l++g++v++++S++s +  p+   sss+vRae++pSg+li+p+++g+s +++v+hvdl+++++++++r+
  Carubv10022629m 261 IYTQMYAPTTLAAaRDFWTLRYSTCLEDGSYVVCERSLTSATGGPTgppSSSFVRAEMRPSGFLIRPCEGGGSILHIVDHVDLDAWSVPEVMRP 354
                      ******************************************9999999********************************************* PP

                      HHHHHHHHHHHHHHHHTXXXXX CS
            START 184 lvksglaegaktwvatlqrqce 205
                      l++s+ + ++k++va+l++ ++
  Carubv10022629m 355 LYESSKILAQKMTVAALRHVRQ 376
                      *****************98765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.3211478IPR001356Homeobox domain
SMARTSM003895.7E-151682IPR001356Homeobox domain
SuperFamilySSF466897.27E-171882IPR009057Homeodomain-like
CDDcd000864.06E-161979No hitNo description
PfamPF000466.4E-162077IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.0E-182177IPR009057Homeodomain-like
CDDcd146865.44E-671110No hitNo description
PROSITE profilePS5084826.98158386IPR002913START domain
CDDcd088751.02E-75162378No hitNo description
Gene3DG3DSA:3.30.530.202.2E-22166372IPR023393START-like domain
SuperFamilySSF559613.57E-36167379No hitNo description
SMARTSM002341.1E-63167377IPR002913START domain
PfamPF018522.9E-57168376IPR002913START domain
SuperFamilySSF559611.51E-5415496No hitNo description
SuperFamilySSF559611.51E-5528603No hitNo description
PfamPF086701.1E-48700845IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010072Biological Processprimary shoot apical meristem specification
GO:0080060Biological Processintegument development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 847 aa     Download sequence    Send to blast
MMVHTMNRDS PDKGLDSGKY VRYTPEQVEA LERVYTECPK PSSLRRQQLI RECPILSNIE  60
PKQIKVWFQN RRCREKQRKE AARLQTVNRK LNAMNKLLME ENDRLQKQVS HLVYENGHMK  120
HQIHTASGTT TDNSCESVVV SGQQHQQQNP NPQHLQRDAN NPAGLLSIAE EALAEFLSKA  180
TGTAVDWVQM IGMKPGPDSI GIVAISRNCS GIAARACGLV SLEPMKVAEI LKDRPSWLRD  240
CRCVDTLSVI PAGNGGTIEL IYTQMYAPTT LAAARDFWTL RYSTCLEDGS YVVCERSLTS  300
ATGGPTGPPS SSFVRAEMRP SGFLIRPCEG GGSILHIVDH VDLDAWSVPE VMRPLYESSK  360
ILAQKMTVAA LRHVRQIAQE TSGEVQYGGG RQPAVLRTFS QRLCRGFNDA VNGFGDDGWS  420
PMGSDGAEDI TVMINLSPGK FGGAQYGNSF LPSFGSGVLC AKASMLLQNV PPAVLVRFLR  480
EHRSEWADYG VDAYAAASLR ASPFAVPCAR AGGFPSNQVI LPLAQTVEHE ESLEVVRLEG  540
HAYSPEDMGL ARDMYLLQLC SGVDENVVGG CAQLVFAPID ESFADDAPLL PSGFRVIPLE  600
HKSTPTGPSA NRTLDLASAL EGSTRQEGEA DPNGCNFRSV ITIAFQFTFD NHSRDSVASM  660
ARQYVRSIVG SIQRVALAIA PRPGSSISPI SVPTSPEALT LVRWISRSYS LHTGADLFGS  720
GSQTSGDTLL HQLWNHTDAI LCCSLKTNAS PVFTFANQTG LDMLETTLVA LQDIMLDKTL  780
DEPGRKALCS EFPKIMQQGY AHLPAGVCAS SMGRMVSYEQ ATVWKVLEDD ESNHCLAIMF  840
VNWSFV*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. {ECO:0000269|PubMed:11395776, ECO:0000269|PubMed:15328016, ECO:0000269|PubMed:15598805}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10022629m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR165 and miR166. {ECO:0000269|PubMed:14999284, ECO:0000269|PubMed:16033795, ECO:0000269|PubMed:17237362}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412910.0AJ441291.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 14 (ATHB-14 gene).
GenBankAY0997910.0AY099791.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
GenBankBT0003350.0BT000335.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006293359.10.0homeobox-leucine zipper protein ATHB-14
SwissprotO042910.0ATB14_ARATH; Homeobox-leucine zipper protein ATHB-14
TrEMBLR0FTP80.0R0FTP8_9BRAS; Uncharacterized protein
STRINGXP_006293359.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM42562653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G34710.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. 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]
  3. Müller CJ, et al.
    PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis.
    Plant Physiol., 2016. 170(2): p. 956-70
    [PMID:26637548]
  4. Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS
    CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules.
    Development, 2016. 143(3): p. 422-6
    [PMID:26700684]
  5. Kim ES, et al.
    HAWAIIAN SKIRT regulates the quiescent center-independent meristem activity in Arabidopsis roots.
    Physiol Plant, 2016. 157(2): p. 221-33
    [PMID:26968317]
  6. Husbands AY,Aggarwal V,Ha T,Timmermans MC
    In Planta Single-Molecule Pull-Down Reveals Tetrameric Stoichiometry of HD-ZIPIII:LITTLE ZIPPER Complexes.
    Plant Cell, 2016. 28(8): p. 1783-94
    [PMID:27385814]
  7. Di Ruocco G, et al.
    Differential spatial distribution of miR165/6 determines variability in plant root anatomy.
    Development, 2018.
    [PMID:29158439]
  8. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  9. Hashimoto K,Miyashima S,Sato-Nara K,Yamada T,Nakajima K
    Functionally Diversified Members of the MIR165/6 Gene Family Regulate Ovule Morphogenesis in Arabidopsis thaliana.
    Plant Cell Physiol., 2018. 59(5): p. 1017-1026
    [PMID:29462472]