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 cra_locus_5262_iso_1
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family HD-ZIP
Protein Properties Length: 813aa    MW: 89129.6 Da    PI: 6.7293
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_5262_iso_1genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.71.1e-1953108156
                                          TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                             Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                                          r++ +++t++q++e+e++F+++++p+ ++r+eL ++lgL+  qVk+WFqN+R+++k
  cra_locus_5262_iso_1_len_2814_ver_3  53 RKRYHRHTQHQIQEMESFFKECPHPDDKQRKELGRRLGLEPLQVKFWFQNKRTQMK 108
                                          789999***********************************************998 PP
2START218.13e-682464681206
                                          HHHHHHHHHHHHHHHHC-TT-EEEE......EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHH CS
                                START   1 elaeeaaqelvkkalaeepgWvkss......esengdevlqkfeeskv.....dsgealrasgvvdmvlallve 63 
                                          ela +a++el+++a+a+ep+W          e++n+de++++f+++ +      ++ea+r+s+vv+m++ +lve
  cra_locus_5262_iso_1_len_2814_ver_3 246 ELAVAAMEELIRMAQAGEPLWIPCNdniataENLNEDEYVRTFPRGIGpkplgLKSEASRESAVVIMNHINLVE 319
                                          57899*****************999999*****************999************************** PP

                                          HHCCCGGCT-TT-S....EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEE CS
                                START  64 ellddkeqWdetla....kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwviv 126
                                          +l+d++ qW+  +     +a tlev+s+g      galq+m+ae+q+++plvp R+ +fvRy++q+ +g+w++v
  cra_locus_5262_iso_1_len_2814_ver_3 320 ILMDVN-QWSSVFSsivsRALTLEVLSTGvagnynGALQVMTAEFQVPTPLVPtRENYFVRYCKQHADGTWAVV 392
                                          ******.******************************************************************* PP

                                          EEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHT CS
                                START 127 dvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatl 200
                                          dvS+d+ ++ +    v R++++pSg+li++++ng+skvtwvehv++++r +h+++r lv++gla+gak+wvatl
  cra_locus_5262_iso_1_len_2814_ver_3 393 DVSLDNLRPTS----VSRCRRRPSGCLIQELPNGYSKVTWVEHVEVDDRAVHNIYRGLVNTGLAFGAKRWVATL 462
                                          ********975....8********************************************************** PP

                                          XXXXXX CS
                                START 201 qrqcek 206
                                          +rqce+
  cra_locus_5262_iso_1_len_2814_ver_3 463 DRQCER 468
                                          ****97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.88E-1937110IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.5E-2138108IPR009057Homeodomain-like
PROSITE profilePS5007116.69850110IPR001356Homeobox domain
SMARTSM003891.7E-1851114IPR001356Homeobox domain
CDDcd000864.29E-1852111No hitNo description
PfamPF000462.1E-1753108IPR001356Homeobox domain
SuperFamilySSF559611.82E-37237470No hitNo description
PROSITE profilePS5084846.044237471IPR002913START domain
CDDcd088754.05E-130241467No hitNo description
SMARTSM002349.7E-69246468IPR002913START domain
PfamPF018524.0E-57247468IPR002913START domain
Gene3DG3DSA:3.30.530.208.7E-6345468IPR023393START-like domain
SuperFamilySSF559614.58E-27487719No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 813 aa     Download sequence    Send to blast
MFDSHHHLLD MTHKTPENEM DLIRDDEFES KSGTDIMEAP SGDDQDPNQR PKRKRYHRHT  60
QHQIQEMESF FKECPHPDDK QRKELGRRLG LEPLQVKFWF QNKRTQMKAQ HERHENTQLR  120
NENEKLRAEN IRYKEALSNA TCPNCGGPAA IGEMSYDEQH LRIENARLRE EIDRISGIAA  180
KYVGKPMLSY PHIPGGGGGG SSRSLDLGVG NFTPPAGMVG EIYGAASDLL RSVSGPTEAD  240
KPMIIELAVA AMEELIRMAQ AGEPLWIPCN DNIATAENLN EDEYVRTFPR GIGPKPLGLK  300
SEASRESAVV IMNHINLVEI LMDVNQWSSV FSSIVSRALT LEVLSTGVAG NYNGALQVMT  360
AEFQVPTPLV PTRENYFVRY CKQHADGTWA VVDVSLDNLR PTSVSRCRRR PSGCLIQELP  420
NGYSKVTWVE HVEVDDRAVH NIYRGLVNTG LAFGAKRWVA TLDRQCERLA SALANNIPAG  480
DIGVITTPEG RKSMLKLAER MVMSFCAGVG ASTAHTWTTL SGSGADDVRV MTRKSMDDPG  540
RPPGIVLSAA TSFWLPVPPK RVFDFLRDEN SRSEWDILSN GGLVQEMAHI ANGRDPGNSV  600
SLLRVNSANS SQSNMLILQE SSTDSTGSYV IYAPVDIVAM NVVLSGGDPD YVALLPSGFA  660
ILPDGPPNNG GGVVEVGTGG SLLTVAFQIL VDSVPTAKLS LGSVATVNSL IKCTVERIKA  720
ALACENAXNS TPSIGPQVRL KRMKESKGHR KEVFKLISIG TGGDLKGEKV KNAPYVILAV  780
WCLQGNXEEE RISPRCKGIG SGIDFTKYRQ TNQ
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027105031.10.0homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_027105032.10.0homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_027111570.10.0homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_027111571.10.0homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_027159776.10.0homeobox-leucine zipper protein MERISTEM L1-like
RefseqXP_027159777.10.0homeobox-leucine zipper protein MERISTEM L1-like
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A068TU250.0A0A068TU25_COFCA; Uncharacterized protein
STRINGXP_009597904.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA9322491
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]