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 Cagra.3519s0026.2.p
Organism
Capsella grandiflora
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: 730aa    MW: 79865 Da    PI: 5.6443
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.3519s0026.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.51.3e-1962117156
                          TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          +++ +++t+ q++eLe++F+++++p+ ++r+eL+++l+L+  qVk+WFqN+R+++k
  Cagra.3519s0026.2.p  62 KKRYHRHTQRQIQELESFFKECPHPDDKQRKELSRELNLEPLQVKFWFQNKRTQMK 117
                          688999***********************************************998 PP
2START214.24.7e-672614801206
                          HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....E CS
                START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....k 78 
                          ela +a++elv++a+ ++p+Wv+     e++n++e+ ++f+++ +      ++ea+r+s+vv+m++ +l e+l+d++ qW+  +     +
  Cagra.3519s0026.2.p 261 ELAVAAMEELVRMAQTGDPLWVTNDnsvEILNEEEYFRTFPRGIGpkpigLRSEASRESTVVIMNHINLIEILMDVN-QWSSVFCgivsR 349
                          57899*****************988888**************999********************************.******99999* PP

                          EEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS
                START  79 aetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161
                          a tlev+s+g      galq+m+ae+q++splvp R+ +fvRy++q+++g w++vdvS+ds ++ p    + R++++pSg+li++++ng+
  Cagra.3519s0026.2.p 350 ALTLEVLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHSDGIWAVVDVSLDSLRPSP----ITRSRRRPSGCLIQELQNGY 435
                          ****************************************************************99....7******************* PP

                          EEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                START 162 skvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                          skvtwveh+++++r++h+++++lv++gla+gak+wvatl+rqce+
  Cagra.3519s0026.2.p 436 SKVTWVEHTEVDDRSVHNMYKPLVNTGLAFGAKRWVATLDRQCER 480
                          *******************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.8E-2243117IPR009057Homeodomain-like
SuperFamilySSF466895.43E-1951119IPR009057Homeodomain-like
PROSITE profilePS5007117.15159119IPR001356Homeobox domain
SMARTSM003893.9E-1860123IPR001356Homeobox domain
CDDcd000864.50E-1962120No hitNo description
PfamPF000463.1E-1762117IPR001356Homeobox domain
PROSITE patternPS00027094117IPR017970Homeobox, conserved site
PROSITE profilePS5084845.554252483IPR002913START domain
SuperFamilySSF559612.33E-35254482No hitNo description
CDDcd088755.56E-126256479No hitNo description
SMARTSM002342.7E-79261480IPR002913START domain
PfamPF018521.9E-56262480IPR002913START domain
Gene3DG3DSA:3.30.530.207.1E-6360479IPR023393START-like domain
SuperFamilySSF559611.01E-14501647No hitNo description
SuperFamilySSF559611.01E-14682721No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009845Biological Processseed germination
GO:0009913Biological Processepidermal cell differentiation
GO:0048825Biological Processcotyledon development
GO:0090627Biological Processplant epidermal cell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 730 aa     Download sequence    Send to blast
MYHPNMFESH HHMFDMTPKN SENDLGLTGS QEDFETKSGA EVTMENPLEE ELQDPNQRPN  60
KKKRYHRHTQ RQIQELESFF KECPHPDDKQ RKELSRELNL EPLQVKFWFQ NKRTQMKAQH  120
ERHENQILKS ENDKLRADNN RYKDALSNAT CPNCGGPAAI GEMSFDEQHL RIENARLREE  180
IDRISAIAAK YVGKPLLANS SPFPQLTSSH HMPSRSLDLD VGNFGNNSNS QAGFVGEMYG  240
TSDILRSVSI PSEADKPMIV ELAVAAMEEL VRMAQTGDPL WVTNDNSVEI LNEEEYFRTF  300
PRGIGPKPIG LRSEASREST VVIMNHINLI EILMDVNQWS SVFCGIVSRA LTLEVLSTGV  360
AGNYNGALQV MTAEFQVPSP LVPTRENYFV RYCKQHSDGI WAVVDVSLDS LRPSPITRSR  420
RRPSGCLIQE LQNGYSKVTW VEHTEVDDRS VHNMYKPLVN TGLAFGAKRW VATLDRQCER  480
LASSMASNIP AGDLSVITSA EGRKSMLKLA ERMVMSFCSG VGASTAHAWT TLSTTGSDDV  540
RVMTRKSMDD PGRPPGIVLS AATSFWIPVA PKRVFDFLRD ENSRSESGNS GQSNMLILQE  600
SCTDASGSYV IYAPVDIMAM NVVLSGGDPD YVALLPSGFA ILPDGSARVG GSASAGAGAG  660
AEGGGGEGNN LEVVTTTGNN GGSLLTVAFQ ILVDSVPTAK LSLGSVATVN SLIKCTVERI  720
KAAVACDGA*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in cell specification and pattern formation during embryogenesis. Binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to PDF2. {ECO:0000269|PubMed:11439135, ECO:0000269|PubMed:12505995}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.3519s0026.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2299700.0AK229970.1 Arabidopsis thaliana mRNA for L1 specific homeobox gene ATML1/ovule-specific homeobox protein A20, complete cds, clone: RAFL22-43-B20.
GenBankAY0911040.0AY091104.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds.
GenBankAY1504910.0AY150491.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006285476.10.0homeobox-leucine zipper protein MERISTEM L1
RefseqXP_023634580.10.0homeobox-leucine zipper protein MERISTEM L1
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLR0GNC90.0R0GNC9_9BRAS; Uncharacterized protein
STRINGCagra.3519s0026.1.p0.0(Capsella grandiflora)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21750.20.0HD-ZIP family protein
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. Takada S,Takada N,Yoshida A
    Induction of epidermal cell fate in Arabidopsis shoots.
    Plant Signal Behav, 2013. 8(11): p. e26236
    [PMID:23989220]
  3. Liang Z,Brown RC,Fletcher JC,Opsahl-Sorteberg HG
    Calpain-Mediated Positional Information Directs Cell Wall Orientation to Sustain Plant Stem Cell Activity, Growth and Development.
    Plant Cell Physiol., 2015. 56(9): p. 1855-66
    [PMID:26220906]
  4. Katagiri Y, et al.
    The coordination of ploidy and cell size differs between cell layers in leaves.
    Development, 2016. 143(7): p. 1120-5
    [PMID:26903507]
  5. Seeliger I, et al.
    The AP2-type transcription factors DORNRÖSCHEN and DORNRÖSCHEN-LIKE promote G1/S transition.
    Mol. Genet. Genomics, 2016. 291(5): p. 1835-49
    [PMID:27277595]
  6. Schwarz EM,Roeder AH
    Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals.
    Front Plant Sci, 2016. 7: p. 1744
    [PMID:27920789]
  7. Meyer HM, et al.
    Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal.
    Elife, 2018.
    [PMID:28145865]