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 maker-scaffold05603-snap-gene-0.9-mRNA-1
Organism
Castanea mollissima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family HD-ZIP
Protein Properties Length: 731aa    MW: 80313.1 Da    PI: 5.851
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
maker-scaffold05603-snap-gene-0.9-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox629.3e-2061116156
                                               TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                                  Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                                               +++ +++t+ q++e+e++F+++++p+ ++r+eL+++lgL+  qVk+WFqN+R+++k
  maker-scaffold05603-snap-gene-0.9-mRNA-1  61 KKRYHRHTQRQIQEMEAFFKECPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 116
                                               688999***********************************************998 PP
2START205.52.1e-642504871206
                                               HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHH CS
                                     START   1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlall 61 
                                               ela +a++elv++a+a+ep+Wv+s    e++n++e+l++f+++ +      ++ea+r+s+vv+m++  l
  maker-scaffold05603-snap-gene-0.9-mRNA-1 250 ELAVAAMEELVRMAQAGEPLWVSSDnstEILNEEEYLRTFPRGIGpkplgLKTEASRESAVVIMNHISL 318
                                               57899*************************************999************************ PP

                                               HHHHCCCGGCT-TT-S....EEEEEEEECTT........................EEEEEEEEXXTTXX CS
                                     START  62 veellddkeqWdetla....kaetlevissg........................galqlmvaelqals 102
                                               ve+l+d++ +W+  +     +a+tlev+s+g                         +l +m+ae+q++s
  maker-scaffold05603-snap-gene-0.9-mRNA-1 319 VEILMDVN-RWSSVFCgivsRAMTLEVLSTGvagnyngalqvlvisaredmylinFVLLQMTAEFQVPS 386
                                               ********.*****999999************************************************* PP

                                               -SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-E CS
                                     START 103 plvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehv 170
                                               plvp R+ +fvRy++q+ +g+w++vdvS+d+ ++ p    + R++++pSg+li++++ng+ kv+wvehv
  maker-scaffold05603-snap-gene-0.9-mRNA-1 387 PLVPtRENYFVRYCKQHADGTWAVVDVSLDNLRPSP----ISRSRRRPSGCLIQELPNGYAKVVWVEHV 451
                                               **********************************99....69*************************** PP

                                               E--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                                     START 171 dlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                                               ++++r +h+++r+lv+sg+a+gak+w+atl+r ce+
  maker-scaffold05603-snap-gene-0.9-mRNA-1 452 EVDDRAVHNIYRPLVNSGIAFGAKRWLATLDRKCER 487
                                               **********************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.7E-2243116IPR009057Homeodomain-like
SuperFamilySSF466893.97E-1947118IPR009057Homeodomain-like
PROSITE profilePS5007116.82758118IPR001356Homeobox domain
SMARTSM003897.5E-1959122IPR001356Homeobox domain
PfamPF000462.3E-1761116IPR001356Homeobox domain
CDDcd000869.74E-1961119No hitNo description
PROSITE patternPS00027093116IPR017970Homeobox, conserved site
PROSITE profilePS5084844.99241490IPR002913START domain
SuperFamilySSF559611.92E-32241489No hitNo description
CDDcd088751.39E-123245486No hitNo description
SMARTSM002345.1E-62250487IPR002913START domain
PfamPF018521.7E-53251487IPR002913START domain
Gene3DG3DSA:3.30.530.201.4E-4387485IPR023393START-like domain
SuperFamilySSF559611.23E-14508723No 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: 731 aa     Download sequence    Send to blast
MFQPDIFETH HHLLNMSHKS DDDDDDELGK LRDDDFETKS GTETMEAPSG DDQDPNQRPK  60
KKRYHRHTQR QIQEMEAFFK ECPHPDDKQR KELSRELGLE PLQVKFWFQN KRTQMKAQHE  120
RHENSILKSE NEKLRAENNR YKEALSNATC PNCGGPAALG EMSFDEQHLR IENARLREEI  180
DRISGIAAKY VGKPLTSYSH LSSHVPSRSL DLGVGNFGAQ SGFVGEMYGG NDLFRSITGP  240
TDADKPMIVE LAVAAMEELV RMAQAGEPLW VSSDNSTEIL NEEEYLRTFP RGIGPKPLGL  300
KTEASRESAV VIMNHISLVE ILMDVNRWSS VFCGIVSRAM TLEVLSTGVA GNYNGALQVL  360
VISAREDMYL INFVLLQMTA EFQVPSPLVP TRENYFVRYC KQHADGTWAV VDVSLDNLRP  420
SPISRSRRRP SGCLIQELPN GYAKVVWVEH VEVDDRAVHN IYRPLVNSGI AFGAKRWLAT  480
LDRKCERLAS SMANNIPAGD LCVITSAEGR KSMLKLAERM VVSFCTGVGA STAHAWTTLS  540
AAGSDDVRVM TRKSMDDPGR PPGIVLSAAT SFWIPVPPKR WDILSNGGLV QEMAHIANGR  600
DPGNSVSLLR SANSSQSNML ILQESCTDST GSYVIYAPVD IVAMNVVLSG GDPDYVALLP  660
SGFAILPDGP GLNGGGIVEV GSGGSLLTVA FQILVDSVPT AKLSLGSVAT VNSLIKCTVE  720
RIRAAVMCDN A
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023904569.10.0homeobox-leucine zipper protein MERISTEM L1-like isoform X1
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A2N9IRK20.0A0A2N9IRK2_FAGSY; Uncharacterized protein
STRINGEOY286240.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15083499
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]