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 evm_27.model.AmTr_v1.0_scaffold00007.163
Common NameAMTR_s00007p00193000
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family MYB_related
Protein Properties Length: 331aa    MW: 36191.4 Da    PI: 10.1346
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00007.163genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding346.6e-113585146
                                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
                           Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                                              +++WT eE+  l  +v ++G+g W+tI +          R+  ++k++w++
  evm_27.model.AmTr_v1.0_scaffold00007.163 35 KQKWTSEEEAALRAGVDKYGPGKWRTILKDPVfsvilALRSNVDLKDKWRN 85
                                              79***********************************88***********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129410.7923091IPR017930Myb domain
SuperFamilySSF466891.08E-1532107IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.1E-133386IPR009057Homeodomain-like
SMARTSM007177.3E-63489IPR001005SANT/Myb domain
PfamPF002491.3E-73585IPR001005SANT/Myb domain
CDDcd116603.80E-183686No hitNo description
SuperFamilySSF467852.88E-16149222IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005261.3E-15149214IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150423.555151219IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.102.6E-15154216IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005383.1E-9156212IPR005818Linker histone H1/H5, domain H15
CDDcd000739.79E-11157212No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0046686Biological Processresponse to cadmium ion
GO:0000786Cellular Componentnucleosome
GO:0005730Cellular Componentnucleolus
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
GO:0033613Molecular Functionactivating transcription factor binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0070491Molecular Functionrepressing transcription factor binding
GO:1990841Molecular Functionpromoter-specific chromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 331 aa     Download sequence    Send to blast
MEERIESSSR HTEVKSGGPD SLKKVAGFLS MGAPKQKWTS EEEAALRAGV DKYGPGKWRT  60
ILKDPVFSVI LALRSNVDLK DKWRNMSVTA NGWGSREKAR LALKKSQHFS KHDDNPLALS  120
TVVNGIDDEI VDAKPLAMSN GHLQITGPKR TISRLDNLVM DAIANLKEPG GSNKSAIAVY  180
IEDQYWAPPN FKRLLSAKLK TLTASGKLVK IKRKYLIPPN RMLVEERNSG VLLLEGKPRD  240
SPRSERSDVR LLTRSQIDAE LAKMRNMSAQ EAARVAAQAV AEAEVAMAEA EEAAREAEAA  300
EADAEAAQAF AEAAMMTLKS RNSSKLAYKP *
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00607ChIP-seqTransfer from AT1G49950Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011623052.10.0telomere repeat-binding factor 1 isoform X1
SwissprotQ8VWK41e-90TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLW1P6590.0W1P659_AMBTC; Uncharacterized protein
STRINGERN053520.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP8551659
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.39e-92telomere repeat binding factor 1
Publications ? help Back to Top
  1. Alexandrov NN, et al.
    Features of Arabidopsis genes and genome discovered using full-length cDNAs.
    Plant Mol. Biol., 2006. 60(1): p. 69-85
    [PMID:16463100]
  2. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  3. Schrumpfová PP, et al.
    Telomere repeat binding proteins are functional components of Arabidopsis telomeres and interact with telomerase.
    Plant J., 2014. 77(5): p. 770-81
    [PMID:24397874]
  4. Liang SC, et al.
    Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2.
    PLoS Genet., 2015. 11(12): p. e1005660
    [PMID:26642436]
  5. Fulcher N,Riha K
    Using Centromere Mediated Genome Elimination to Elucidate the Functional Redundancy of Candidate Telomere Binding Proteins in Arabidopsis thaliana.
    Front Genet, 2015. 6: p. 349
    [PMID:26779251]
  6. Kotliński M, et al.
    Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain.
    Plant Physiol., 2017. 174(1): p. 27-34
    [PMID:28298478]