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_00009319-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family MYB_related
Protein Properties Length: 249aa    MW: 28077.4 Da    PI: 10.6342
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00009319-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding34.93.6e-11757146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                      +++WT eE+  l ++v+++G+g W++I r          R+  ++k++w++
  PSME_00009319-RA  7 KQKWTHEEEAALRNGVEKYGPGKWRAILRDPTwssclASRSNVDLKDKWRN 57
                      79****************************99*****9************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129410.976163IPR017930Myb domain
SuperFamilySSF466891.24E-16474IPR009057Homeodomain-like
SMARTSM007172.1E-7661IPR001005SANT/Myb domain
PfamPF002492.0E-8757IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.6E-14758IPR009057Homeodomain-like
CDDcd116601.82E-18858No hitNo description
SMARTSM005268.3E-13131196IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150423.309132201IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467858.71E-14136214IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.108.3E-17138216IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005381.5E-11138204IPR005818Linker histone H1/H5, domain H15
CDDcd000735.88E-11140204No 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:0043047Molecular Functionsingle-stranded telomeric DNA binding
GO:0070491Molecular Functionrepressing transcription factor binding
GO:1990841Molecular Functionpromoter-specific chromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 249 aa     Download sequence    Send to blast
MQMGAPKQKW THEEEAALRN GVEKYGPGKW RAILRDPTWS SCLASRSNVD LKDKWRNMSV  60
TANGWGSREK ARLALKRSKS IAKQSGRQLA LSALNNGNMD VVLVTKPLTT VNPYLPSSNK  120
RCISRLCNSM SICLSRLDKL ILDAVSTLKE PNGSSKSAIA TYIEENQYPP PNFRRMLSSK  180
LKSLVISEKL VKIRQNYMIS GSFRSDDEKA SKSEKEEKHV TILSKNTSKK NKFSFDPVIM  240
FISFSQQEV
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT1130241e-165BT113024.1 Picea glauca clone GQ03324_K18 mRNA sequence.
GenBankEF6783841e-165EF678384.1 Picea sitchensis clone WS02919_A17 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011623052.18e-76telomere repeat-binding factor 1 isoform X1
RefseqXP_011623053.17e-76telomere repeat-binding factor 1 isoform X2
RefseqXP_011623054.17e-76telomere repeat-binding factor 1 isoform X2
SwissprotQ8VWK44e-60TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLB8LR631e-135B8LR63_PICSI; Uncharacterized protein
STRINGERN053524e-75(Amborella trichopoda)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.32e-62telomere 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. 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]
  3. 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]
  4. 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]
  5. 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]