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 RrC3306_p2
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB_related
Protein Properties Length: 345aa    MW: 38189.3 Da    PI: 8.7426
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3306_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding35.22.9e-114292146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                     +++WT+eE+  l  +v ++G+g W+tI +          R+  ++k++w++
       RrC3306_p2 42 KQKWTQEEESALRSGVIKHGPGKWRTILKDPDfsevlFLRSNVDLKDKWRN 92
                     79**********************************955**********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.4E-1439102IPR009057Homeodomain-like
SMARTSM007172.1E-64196IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.6E-134193IPR009057Homeodomain-like
PfamPF002492.4E-84292IPR001005SANT/Myb domain
PROSITE profilePS500907.6774294IPR017877Myb-like domain
CDDcd116601.04E-174393No hitNo description
SMARTSM005263.4E-14146211IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.101.7E-12147217IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467852.67E-14147225IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150423.445148216IPR005818Linker histone H1/H5, domain H15
PfamPF005383.4E-6154209IPR005818Linker 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: 345 aa     Download sequence    Send to blast
SFFFQKPLEI LPKRKLNQEK LELVSRRSNY SQKSGFVMGA PKQKWTQEEE SALRSGVIKH  60
GPGKWRTILK DPDFSEVLFL RSNVDLKDKW RNMSVMSNGW GSREKSRVGV KRTPSLPKQE  120
DTSLAADSSP PQSDEEMAEE DATGTSAPNV RLDSLIMEAI STIKEPGGSN KTSIGTYIEE  180
QYHAPPDFKR LLSAKLKYLT ARRKLIKVKR KYRIPSSTPL SSHRRKHLGS SSGKQGSLSL  240
PSPKTDGDEV SVEANAQIDP ELDRMKTMNV QEAAAIAAQA VAEAEAATAA AEEAAKDAEL  300
AEAEAEVAQA FAEEAMNTLK GRYNKKCLLM VCIEIFDSTD DPCLR
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0627365e-76AY062736.1 Arabidopsis thaliana Unknown protein (At1g49950; F2J10.16) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018461330.11e-166PREDICTED: telomere repeat-binding factor 1-like
SwissprotQ8VWK41e-121TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A078I5Y71e-151A0A078I5Y7_BRANA; BnaC05g50690D protein
TrEMBLA0A0D3CFX61e-151A0A0D3CFX6_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FGF41e-151A0A3P6FGF4_BRAOL; Uncharacterized protein
STRINGBo5g077530.11e-151(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM87222539
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.31e-113telomere 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]