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 Solyc11g044320.1.1
Common NameLOC101247285
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family MYB_related
Protein Properties Length: 301aa    MW: 33124.8 Da    PI: 9.8884
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc11g044320.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding32.91.5e-10556147
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47
                        +++WT eE+  l+ ++ ++G+g W+tI +          R+  ++k++w++ 
  Solyc11g044320.1.1  5 KQKWTSEEEAALKAGILKHGPGKWRTILKDPEfsgvlCLRSNVDLKDKWRNM 56
                        79***********************************66***********95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129410.941161IPR017930Myb domain
SuperFamilySSF466895.68E-15271IPR009057Homeodomain-like
SMARTSM007178.7E-6459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.0E-13456IPR009057Homeodomain-like
PfamPF002492.1E-7556IPR001005SANT/Myb domain
CDDcd116604.56E-18657No hitNo description
PROSITE profilePS5150424.155114188IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467858.71E-16118194IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005261.5E-12118183IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.106.8E-15119192IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005386.4E-8125181IPR005818Linker 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:0031627Biological Processtelomeric loop formation
GO:0046686Biological Processresponse to cadmium ion
GO:0000784Cellular Componentnuclear chromosome, telomeric region
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: 301 aa     Download sequence    Send to blast
MGAPKQKWTS EEEAALKAGI LKHGPGKWRT ILKDPEFSGV LCLRSNVDLK DKWRNMTVMA  60
NGWGSREQAR LAVKKMRQAP KQDGSPLTDT TAADSDEEAA ETRTVTTSSG SPQTHGSKRS  120
MIRLDNLIME AINTLKEPGG SNKITIAEYI EDQYWAPPNF KRLLSGKLKY LTATGKLIKM  180
KRRYRIVPMS TPSDSRRNLS LPLLDSRQRI FPKIDRDDMT MLSTSQIDLE LARMRNMTPQ  240
EAAAAAAQAV AEAEEAIAEA EEAGREAEAA EADAEAAQAF SVAAKKTLHG RSTPRMMIHA  300
*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.119680.0floral bud| fruit| leaf| root
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc11g044320.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2471451e-122Solanum lycopersicum strain Heinz 1706 chromosome 11 clone slm-26i2 map 11, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004250736.10.0telomere repeat-binding factor 1
RefseqXP_010313071.10.0telomere repeat-binding factor 1
RefseqXP_010313072.10.0telomere repeat-binding factor 1
SwissprotQ8VWK41e-100TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A3Q7IWG40.0A0A3Q7IWG4_SOLLC; Uncharacterized protein
STRINGSolyc11g044320.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA28642448
Representative plantOGRP8551659
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.36e-94telomere repeat binding factor 1
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. 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]
  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]