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 PSME_00032552-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family HD-ZIP
Protein Properties Length: 784aa    MW: 86103.6 Da    PI: 6.0074
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00032552-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox62.85e-2086141156
                       TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
          Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                       +++ +++t++q++e+e +F+++++p+ ++r+eL+++lgL+  qVk+WFqN+R+++k
  PSME_00032552-RA  86 KKRYHRHTQHQIQEMEMFFKECPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 141
                       678899***********************************************999 PP
2START209.61.2e-652805221206
                       HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEE CS
             START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kae 80 
                       ela +a++elv++a+++ep+W++ +    +++n+de++++f+++ +      + ea+r+++vv+m++ +lve+l+d++ qW+ +++    +  
  PSME_00032552-RA 280 ELAVAAMEELVRMAQLGEPLWTLRPedstDILNEDEYIRTFPRGIGprpygLKAEASRETAVVIMNAINLVETLMDVN-QWSSMFPgivsRPF 371
                       57899**************************************999********************************.*********99999 PP

                       EEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE..... CS
             START  81 tlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh..... 161
                       t++v+s+g      galq+m ae+q++splvp R+ +f+Ry++q+++  w+ivdvS+ds + ++  ssv+R++++pSg+li++++n +     
  PSME_00032552-RA 372 TVDVLSTGvagnynGALQVMHAEFQVPSPLVPtRENYFIRYCKQHSDSIWAIVDVSLDSFRGNS--SSVIRCRRRPSGCLIQEMPNSYskagd 462
                       **************************************************************85..8************************** PP

                       ...............EEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
             START 162 ...............skvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                                      + vtwvehv+ ++r +h ++r+lv+sg+a+gak+w atlqrqce+
  PSME_00032552-RA 463 tapyifyyslylllfCLVTWVEHVEADDRAVHHIYRQLVNSGMAFGAKRWIATLQRQCER 522
                       **********************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.607.7E-2266141IPR009057Homeodomain-like
SuperFamilySSF466894.18E-1974143IPR009057Homeodomain-like
PROSITE profilePS5007116.82783143IPR001356Homeobox domain
SMARTSM003897.4E-2084147IPR001356Homeobox domain
CDDcd000864.55E-1985144No hitNo description
PfamPF000461.2E-1786141IPR001356Homeobox domain
PROSITE patternPS000270118141IPR017970Homeobox, conserved site
PROSITE profilePS5084845.407271525IPR002913START domain
SuperFamilySSF559611.95E-38272524No hitNo description
CDDcd088751.45E-129275521No hitNo description
SMARTSM002341.0E-63280522IPR002913START domain
PfamPF018524.6E-54281522IPR002913START domain
SuperFamilySSF559611.24E-24542776No 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:0048497Biological Processmaintenance of floral organ identity
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 784 aa     Download sequence    Send to blast
MPAGFMIPAR HVPPLNMARH AKAGFTTSSG LSLAQPNMAE GQFEMSQTAD SDIAKIREDE  60
FESKSGSDNI EGASGEDQDG ERRPRKKRYH RHTQHQIQEM EMFFKECPHP DDKQRKELSR  120
ELGLEPLQVK FWFQNKRTQM KTQHERHENS QLRSENEKLR SDNMRYREAL SNAACPNCGG  180
PAALGDMTFD EQHLRVENAR LREEIDRISG IAAKYVGKPL LSFGPSALSP IPRSNLDLAV  240
GSYGVQPSIV PDIYGSSSGG EIGNRSLSGP TEGEKPMVVE LAVAAMEELV RMAQLGEPLW  300
TLRPEDSTDI LNEDEYIRTF PRGIGPRPYG LKAEASRETA VVIMNAINLV ETLMDVNQWS  360
SMFPGIVSRP FTVDVLSTGV AGNYNGALQV MHAEFQVPSP LVPTRENYFI RYCKQHSDSI  420
WAIVDVSLDS FRGNSSSVIR CRRRPSGCLI QEMPNSYSKA GDTAPYIFYY SLYLLLFCLV  480
TWVEHVEADD RAVHHIYRQL VNSGMAFGAK RWIATLQRQC ERLASVLASN IPARDLGVIP  540
SPEGRKSILK LAERMVTSFC AGVSASTAHT WTTLSGSGAE DVRVMTRKSI DDPGRPPGII  600
LSAATSLWLP VPPKKVFDFL RDENSRNEWD ILSNGGLVQE VDHIANGQDP GNCVSLLRVN  660
TVNSNQSNML ILQESCTDAS GSFVIYAPVD IVAMNVVLSG GDPDYVALLP SGFAVLPDGP  720
KCMAVTNSGI NDLGTGGSLL TVAFQILVDS VPTAKLSLGS VATVNSLISC TVDRIKAAVT  780
RENP
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that 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 ATML1. {ECO:0000269|PubMed:12505995}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1729310.0AF172931.1 Picea abies homeobox 1 (HB1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011628991.10.0homeobox-leucine zipper protein ROC2 isoform X1
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLQ9FR590.0Q9FR59_PICAB; Homeobox 1
STRINGERM937490.0(Amborella trichopoda)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G04890.10.0protodermal factor 2
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]