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 Itr_sc001342.1_g00004.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family MYB_related
Protein Properties Length: 336aa    MW: 37169.3 Da    PI: 9.6798
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc001342.1_g00004.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.55.5e-12556147
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47
                             +++WT+eE+  l+ +v ++G+g W+tI +          R+  ++k++w++ 
  Itr_sc001342.1_g00004.1  5 KQKWTPEEEAALKAGVLKHGPGKWRTILKDPEysgvlYLRSNVDLKDKWRNM 56
                             79****************************99999**88***********95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.634161IPR017930Myb domain
SuperFamilySSF466891.4E-15270IPR009057Homeodomain-like
SMARTSM007175.8E-7459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.3E-13556IPR009057Homeodomain-like
PfamPF002499.1E-9556IPR001005SANT/Myb domain
CDDcd116601.65E-17657No hitNo description
SMARTSM005261.5E-10118183IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467852.29E-15118199IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.101.1E-13119188IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150422.446120188IPR005818Linker histone H1/H5, domain H15
PfamPF005381.8E-7125180IPR005818Linker histone H1/H5, domain H15
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: 336 aa     Download sequence    Send to blast
MGAPKQKWTP EEEAALKAGV LKHGPGKWRT ILKDPEYSGV LYLRSNVDLK DKWRNMTVMA  60
NGWGSREKSR LALKRVHRTS KQDESSLALT NVVQSEEESS EGKRVATSSG SPQNGGSKRS  120
IIRLDNLVMD AINNLKEPGG SNKKTIAAYI EDQYWAPPNF KRLLSAKLKY LTATGKLMKM  180
SRKYRIVPSS LLSDNTRKPP IPILEGRERI LPKVDQYDID MLTKSQIDLE LAKMRSMTPQ  240
EAATAAAQAV AEAEAAIAEA EQAAREAEAA EADAEAALAF AEAAMKTAHG RSTPRMENPD  300
LVDLNPDERV QMSFQPSHSY STLVNMGDFP VTRIRC
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
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019166127.11e-174PREDICTED: telomere repeat-binding factor 1-like
RefseqXP_019166128.11e-174PREDICTED: telomere repeat-binding factor 1-like
SwissprotQ8VWK41e-100TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A068TPK31e-133A0A068TPK3_COFCA; Uncharacterized protein
STRINGPGSC0003DMT4000595431e-133(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA28642448
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.31e-101telomere 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]