PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT1G49950.3
Common NameATTRB1, F2J10.16, TRB1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MYB_related
Protein Properties Length: 300aa    MW: 33016.6 Da    PI: 9.9053
Description telomere repeat binding factor 1
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G49950.3genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.64.9e-12555146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                     +++WT+eE+  l+ +v ++G+g W+tI +          R+  ++k++w++
      AT1G49950.3  5 KQKWTQEEESALKSGVIKHGPGKWRTILKDPEfsgvlYLRSNVDLKDKWRN 55
                     79***********************************88***********9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.594158IPR017930Myb domain
SuperFamilySSF466895.16E-15271IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.6E-13456IPR009057Homeodomain-like
SMARTSM007175.4E-7459IPR001005SANT/Myb domain
PfamPF002491.2E-8555IPR001005SANT/Myb domain
CDDcd116608.16E-18656No hitNo description
SMARTSM005263.3E-13113180IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467852.94E-15116193IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150422.895117185IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.105.6E-13118186IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005382.1E-7122178IPR005818Linker 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:0000785Cellular Componentchromatin
GO:0000786Cellular Componentnucleosome
GO:0005730Cellular Componentnucleolus
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001017developmental stageM germinated pollen stage
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 300 aa     Download sequence    Send to blast
MGAPKQKWTQ EEESALKSGV IKHGPGKWRT ILKDPEFSGV LYLRSNVDLK DKWRNMSVMA  60
NGWGSREKSR LAVKRTFSLP KQEENSLALT NSLQSDEENV DATSGLQVSS NPPPRRPNVR  120
LDSLIMEAIA TLKEPGGCNK TTIGAYIEDQ YHAPPDFKRL LSTKLKYLTS CGKLVKVKRK  180
YRIPNSTPLS SHRRKGLGVF GGKQRTSSLP SPKTDIDEVN FQTRSQIDTE IARMKSMNVH  240
EAAAVAAQAV AEAEAAMAEA EEAAKEAEAA EAEAEAAQAF AEEASKTLKG RNICKMMIRA
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.272500.0flower| leaf| vegetative tissue
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible261637_at0.0
Expression AtlasAT1G49950-
AtGenExpressAT1G49950-
ATTED-IIAT1G49950-
Functional Description ? help Back to Top
Source Description
TAIREncodes a telomeric DNA binding protein. In vitro, an N-terminal Myb domain enables it to interact with double-stranded telomeric repeats.
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Function -- GeneRIF ? help Back to Top
  1. The domains responsible for that interaction AtTRB1 and AtPOT1b were identified.
    [PMID: 18387366]
  2. DNA-protein interaction of the full-length and truncated variants of AtTRB1, a Single-Myb-Histone-family member with a typical structure
    [PMID: 18479720]
  3. AtTRB1 is highly dynamic during interphase. The histone-like domain and the Myb domain can both direct the protein to the nucleolus.
    [PMID: 19947985]
  4. TRB1 shows a specific genome-wide distribution pattern which suggests its role in regulation of genes involved in biogenesis of the translational machinery, in addition to its preferential telomeric localization.
    [PMID: 26597966]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00607ChIP-seqSRX1044956Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT1G49950.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- Hormone ? help Back to Top
Source Hormone
AHDabscisic acid, auxin, ethylene, gibberellin, jasmonic acid, salicylic acid
Interaction -- BIND ? help Back to Top
Source Intact With Description
BINDAT1G49950TRB1 interacts with another molecule of TRB1.
Interaction ? help Back to Top
Source Intact With
BioGRIDAT1G49950
IntActSearch Q8VWK4
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G49950
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0627360.0AY062736.1 Arabidopsis thaliana Unknown protein (At1g49950; F2J10.16) mRNA, complete cds.
GenBankAY5195390.0AY519539.1 Arabidopsis thaliana MYB transcription factor (At1g49950) mRNA, complete cds.
GenBankBT0096770.0BT009677.1 Arabidopsis thaliana At1g49950 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_564559.10.0telomere repeat binding factor 1
RefseqNP_849789.10.0telomere repeat binding factor 1
RefseqNP_973998.10.0telomere repeat binding factor 1
SwissprotQ8VWK40.0TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A178W8N70.0A0A178W8N7_ARATH; TRB1
STRINGAT1G49950.30.0(Arabidopsis thaliana)
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Marian CO, et al.
    The maize Single myb histone 1 gene, Smh1, belongs to a novel gene family and encodes a protein that binds telomere DNA repeats in vitro.
    Plant Physiol., 2003. 133(3): p. 1336-50
    [PMID:14576282]
  3. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  4. Wierzbicki AT,Jerzmanowski A
    Suppression of histone H1 genes in Arabidopsis results in heritable developmental defects and stochastic changes in DNA methylation.
    Genetics, 2005. 169(2): p. 997-1008
    [PMID:15489532]
  5. Kuchar M,Fajkus J
    Interactions of putative telomere-binding proteins in Arabidopsis thaliana: identification of functional TRF2 homolog in plants.
    FEBS Lett., 2004. 578(3): p. 311-5
    [PMID:15589838]
  6. 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]
  7. Yanhui C, et al.
    The MYB transcription factor superfamily of Arabidopsis: expression analysis and phylogenetic comparison with the rice MYB family.
    Plant Mol. Biol., 2006. 60(1): p. 107-24
    [PMID:16463103]
  8. Broekgaarden C, et al.
    Genotypic variation in genome-wide transcription profiles induced by insect feeding: Brassica oleracea--Pieris rapae interactions.
    BMC Genomics, 2007. 8: p. 239
    [PMID:17640338]
  9. Schrumpfov
    Mapping of interaction domains of putative telomere-binding proteins AtTRB1 and AtPOT1b from Arabidopsis thaliana.
    FEBS Lett., 2008. 582(10): p. 1400-6
    [PMID:18387366]
  10. Mozgová I,Schrumpfová PP,Hofr C,Fajkus J
    Functional characterization of domains in AtTRB1, a putative telomere-binding protein in Arabidopsis thaliana.
    Phytochemistry, 2008. 69(9): p. 1814-9
    [PMID:18479720]
  11. Wang Y, et al.
    Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis.
    Plant Physiol., 2008. 148(3): p. 1201-11
    [PMID:18775970]
  12. Hofr C, et al.
    Single-Myb-histone proteins from Arabidopsis thaliana: a quantitative study of telomere-binding specificity and kinetics.
    Biochem. J., 2009. 419(1): p. 221-8, 2 p following 228
    [PMID:19102728]
  13. Dvorácková M, et al.
    AtTRB1, a telomeric DNA-binding protein from Arabidopsis, is concentrated in the nucleolus and shows highly dynamic association with chromatin.
    Plant J., 2010. 61(4): p. 637-49
    [PMID:19947985]
  14. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
    [PMID:21798944]
  15. 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]
  16. Schrumpfov
    Telomere binding protein TRB1 is associated with promoters of translation machinery genes in vivo.
    Plant Mol. Biol., 2016. 90(1-2): p. 189-206
    [PMID:26597966]
  17. 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]
  18. Zhou Y,Hartwig B,James GV,Schneeberger K,Turck F
    Complementary Activities of TELOMERE REPEAT BINDING Proteins and Polycomb Group Complexes in Transcriptional Regulation of Target Genes.
    Plant Cell, 2016. 28(1): p. 87-101
    [PMID:26721861]
  19. 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]
  20. 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]