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 RrC1853_p3
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: 299aa    MW: 32767.3 Da    PI: 10.5586
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1853_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding41.53e-13555146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                     +++WT+eE+  l+ +v ++G+g W+tI +  +     k R+  ++k++w++
       RrC1853_p3  5 KQKWTPEEEAALKAGVLKHGTGKWRTILSDPQfssvlKSRSNVDLKDKWRN 55
                     79***********************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129414.388161IPR017930Myb domain
SuperFamilySSF466891.12E-15259IPR009057Homeodomain-like
SMARTSM007173.4E-7459IPR001005SANT/Myb domain
PfamPF002493.5E-9555IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.2E-14556IPR009057Homeodomain-like
CDDcd116601.33E-18656No hitNo description
SuperFamilySSF467855.44E-15121201IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.103.6E-12122188IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005263.0E-13122187IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150419.857124192IPR005818Linker histone H1/H5, domain H15
PfamPF005383.1E-9128185IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
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:0046686Biological Processresponse to cadmium ion
GO:0000786Cellular Componentnucleosome
GO:0005730Cellular Componentnucleolus
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0043047Molecular Functionsingle-stranded telomeric DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 299 aa     Download sequence    Send to blast
MGAPKQKWTP EEEAALKAGV LKHGTGKWRT ILSDPQFSSV LKSRSNVDLK DKWRNISVTA  60
LWGSRKKAKL ALRKTLPAPP KQDHTNNTTS LSIVPLANGQ ERTNPTSPGG SGAGSLQTHA  120
SKRSITSLDR IILEAITNLK EPRGSDRTSI FMYIEENFKT PPNMKRNVAV RLKHLSSNGP  180
LVKIKHKYRF STNLTSVGAR QKSPQLLLEG NNKKDSPEPV APRADGELLM IKGMTAQDAA  240
EAAARAVAEA EFAITEAEEA AKEAERAEAE AEAAQIYAKA AVKALKFRIR NHTWFEGDE
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats, but it can also bind to the single G-rich telomeric strand.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00597DAPTransfer from AT5G67580Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018488954.10.0PREDICTED: telomere repeat-binding factor 2
RefseqXP_018488955.10.0PREDICTED: telomere repeat-binding factor 2
RefseqXP_018488956.10.0PREDICTED: telomere repeat-binding factor 2
RefseqXP_018488957.10.0PREDICTED: telomere repeat-binding factor 2
SwissprotQ9FJW51e-130TRB2_ARATH; Telomere repeat-binding factor 2
TrEMBLA0A3P6B3E31e-169A0A3P6B3E3_BRAOL; Uncharacterized protein
STRINGBo3g096520.11e-167(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM38092759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G67580.21e-110MYB_related family protein
Publications ? help Back to Top
  1. Lee WK,Cho MH
    Telomere-binding protein regulates the chromosome ends through the interaction with histone deacetylases in Arabidopsis thaliana.
    Nucleic Acids Res., 2016. 44(10): p. 4610-24
    [PMID:26857545]
  2. 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]