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 RrC4511_p6
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: 268aa    MW: 29338.1 Da    PI: 6.9651
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4511_p6genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding21.84.2e-07154203147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT...TTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmg...kgRtlkqcksrwqky 47 
                      r +++  E e lv+av++lG+g+W+ +  +      +Rt  ++k++w ++
       RrC4511_p6 154 RRPFSVTEVEALVQAVEELGTGRWRDVKLRAFesaDHRTYVDLKDKWKTL 203
                      678999********************9888878999***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.599149208IPR017930Myb domain
SMARTSM007174.1E-7153206IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.9E-10154204IPR009057Homeodomain-like
CDDcd116601.20E-16155205No hitNo description
SuperFamilySSF466892.37E-15155236IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 268 aa     Download sequence    Send to blast
MEAVSVLLSG GIRVGVVVHG KKVRDDKKTL SQTGISCGEN LTNLGFTLEP GGPSKVHVPL  60
CSQDPLVPID PTNLSERSAA SPTLDTETPH ADDVDNNNHL ELVPYQKEIT VGEEEPSSDT  120
RAIVPLPALE VEALAIVPLS QKPKRTELAQ RRTRRPFSVT EVEALVQAVE ELGTGRWRDV  180
KLRAFESADH RTYVDLKDKW KTLVHTASIS PQQRRGEPVP QELLDRVLRA YGYWSQRQGK  240
HQGRGGGGGA HKDADMNRGR VVESGVSV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2juh_A2e-581382401103Telomere binding protein TBP1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtBinds specifically to the plant telomeric double-stranded DNA sequences. At least 2 repeats of telomeric sequences are required for binding. Induces DNA bending. {ECO:0000269|PubMed:15688221}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3535281e-140AK353528.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-49-H19.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018441391.11e-167PREDICTED: telomere repeat-binding protein 3-like isoform X1
RefseqXP_018441392.11e-167PREDICTED: telomere repeat-binding protein 3-like isoform X1
RefseqXP_018441393.11e-167PREDICTED: telomere repeat-binding protein 3-like isoform X2
SwissprotQ9C7B11e-149TRP3_ARATH; Telomere repeat-binding protein 3
TrEMBLA0A078IMD41e-167A0A078IMD4_BRANA; BnaA01g30510D protein
TrEMBLA0A3P5ZB411e-167A0A3P5ZB41_BRACM; Uncharacterized protein
STRINGBo1g139150.11e-165(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM32402539
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G07540.11e-48TRF-like 2
Publications ? help Back to Top
  1. Hwang MG,Cho MH
    Arabidopsis thaliana telomeric DNA-binding protein 1 is required for telomere length homeostasis and its Myb-extension domain stabilizes plant telomeric DNA binding.
    Nucleic Acids Res., 2007. 35(4): p. 1333-42
    [PMID:17272298]
  2. 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]