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 PGSC0003DMP400044570
Common NameLOC102581727
Organism
Solanum tuberosum
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
Family MYB_related
Protein Properties Length: 301aa    MW: 33294 Da    PI: 10.2417
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400044570genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding38.52.8e-12555146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                          +++WT++E+  l+ +v+++G+g W+tI +          R+  ++k++w++
  PGSC0003DMP400044570  5 KQKWTPDEEAALKAGVRKHGPGKWRTILKDPEfsgvlYSRSNVDLKDKWRN 55
                          79************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.525163IPR017930Myb domain
SuperFamilySSF466895.46E-16259IPR009057Homeodomain-like
SMARTSM007173.9E-8459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.0E-14456IPR009057Homeodomain-like
PfamPF002493.0E-9555IPR001005SANT/Myb domain
CDDcd116609.62E-20656No hitNo description
SMARTSM005262.0E-14118183IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467852.67E-17118197IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.103.6E-15119188IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150423.631120188IPR005818Linker histone H1/H5, domain H15
PfamPF005381.2E-8125181IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0000786Cellular Componentnucleosome
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 301 aa     Download sequence    Send to blast
MGAPKQKWTP DEEAALKAGV RKHGPGKWRT ILKDPEFSGV LYSRSNVDLK DKWRNMSVMA  60
NGCGSREKAR LTLKRMNQAR KQDERSLSVS TEAKSDEEMT EARLATTSSD SPQIRGSKRS  120
IIRLDNLIME AISNLKEPGG SNKTTIATYI EDQYWAPTNF KRLLSAKLKY LTATGRLIKM  180
KRKYRIAPTP VLSDRRRIPS VPLLESRQRI SSRVDQDDIN TLTKAQVDFE LTMMRSMTPQ  240
EAAVAAARAV AEAEVAIAEA EDAARDADAA EADAEAAQAF AEAAMKALEG RSTPRMIIHA  300
*
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400044570
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2331351e-167AC233135.4 Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-92h13 map 1, complete sequence.
GenBankHG9754401e-167HG975440.1 Solanum pennellii chromosome ch01, complete genome.
GenBankHG9755131e-167HG975513.1 Solanum lycopersicum chromosome ch01, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006346291.10.0PREDICTED: telomere repeat-binding factor 1 isoform X1
SwissprotQ8VWK44e-95TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLM1CF220.0M1CF22_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000661340.0(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-95telomere 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. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  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]