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 XP_009107250.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB_related
Protein Properties Length: 282aa    MW: 30890.1 Da    PI: 9.2643
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009107250.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding35.81.9e-11755346
                     SS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
  Myb_DNA-binding  3 rWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                     +W++eE+  l  av+++G+g+W+tI +          R+  ++k++w++
   XP_009107250.1  7 KWSQEEESALRSAVAKHGPGRWRTILKDPDfsqvlFLRSNVDLKDKWRN 55
                     8*********************************955**********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.943161IPR017930Myb domain
SuperFamilySSF466893.29E-14258IPR009057Homeodomain-like
SMARTSM007171.4E-6459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.6E-13456IPR009057Homeodomain-like
PfamPF002495.7E-9655IPR001005SANT/Myb domain
CDDcd116605.89E-17656No hitNo description
SMARTSM005266.8E-11101172IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150424.121106177IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467855.99E-13107186IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.101.0E-12111179IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005389.8E-8113170IPR005818Linker 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: 282 aa     Download sequence    Send to blast
MGAPKHKWSQ EEESALRSAV AKHGPGRWRT ILKDPDFSQV LFLRSNVDLK DKWRNISVMG  60
YGSGSRPKPV KRTLGSLPSD EEILEMVDAK NFSTTGSSAL QASSPRTPNW LDSLITEAIC  120
TMKQPGGSSK TAIGNYIQER YEVPPNFKQL LSSKLKYLSA FGSGKLIKVK RKYRIPNSTA  180
LSSHKKRHLG TSSDKDEVSV QRQSEVDGEL ARMMIVNIHE AAAIAAQAVA EAEAAMAEAD  240
EAAKQAEIAE AEAEAAQVFA EEVSKSLKGI KQLQCADDPY LR
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
PlantRegMapXP_009107250.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009107250.10.0PREDICTED: telomere repeat-binding factor 1-like isoform X1
SwissprotQ8VWK45e-84TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A3P6BMZ20.0A0A3P6BMZ2_BRACM; Uncharacterized protein
STRINGBra014227.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2034156
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.33e-76telomere 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]