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 AT3G53790.1
Common NameF5K20.90, TRFL4, TRP6
Organism
Arabidopsis thaliana
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: 354aa    MW: 39606.5 Da    PI: 9.816
Description TRF-like 4
Gene Model
Gene Model ID Type Source Coding Sequence
AT3G53790.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding26.61.4e-08269318147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT...TTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmg...kgRtlkqcksrwqky 47 
                      r ++T  E e lv+av++lG+g+W+ + ++     ++Rt  ++k++w ++
      AT3G53790.1 269 RRPFTVSEVEALVQAVERLGTGRWRDVKSHAFnhvNHRTYVDLKDKWKTL 318
                      679**************************9988999***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF542368.96E-6121194IPR029071Ubiquitin-related domain
CDDcd017694.11E-4131191No hitNo description
PROSITE profilePS5129416.19264323IPR017930Myb domain
SuperFamilySSF466891.22E-16266353IPR009057Homeodomain-like
SMARTSM007172.1E-8268321IPR001005SANT/Myb domain
PfamPF002492.3E-6269318IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.1E-12269319IPR009057Homeodomain-like
CDDcd116601.34E-17270320No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0031627Biological Processtelomeric loop formation
GO:0000783Cellular Componentnuclear telomere cap complex
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025195anatomypollen tube cell
Sequence ? help Back to Top
Protein Sequence    Length: 354 aa     Download sequence    Send to blast
MVDCGVDIYQ LPVVPRACRS PRGRRLKIMR KQRSEFEVLA QVAGRFSGER KNRIVIGSLA  60
HETKETKDDN VVVNNFLETM EVEVKPQPGL ENLSQVLLSK DWLALGPSMP NSPITQEENF  120
DSRSKIVKFG IKSLNISELL VDVPESATVG SLKLAVLEAV TQILKGGLNI GVLFQGKTIV  180
DDSKTLLQIG IPYDDDDDEN LGSLGFMLEP QKSETTTITT LTTVSPRTRL RQNQVLGSVD  240
STEAVAAKSV VPVRMKPAWQ PEMVQRRIRR PFTVSEVEAL VQAVERLGTG RWRDVKSHAF  300
NHVNHRTYVD LKDKWKTLVH TAKISARQRR GEPVPQDLLD RVLAAHAFWS DRTG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2juh_A9e-4826235410102Telomere binding protein TBP1
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO3341859590.0
Genevisible251909_at0.0
Expression AtlasAT3G53790-
AtGenExpressAT3G53790-
ATTED-IIAT3G53790-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed ubiquitously. {ECO:0000269|PubMed:15364931}.
Functional Description ? help Back to Top
Source Description
TAIRArabidopsis thaliana telomere-binding protein, putative (At3g53790)
UniProtBinds specifically to the plant telomeric double-stranded DNA sequences. At least 4 repeats of telomeric sequences are required for binding.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT3G53790.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Interaction ? help Back to Top
Source Intact With
BioGRIDAT3G53790
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: No visible phenotype, probably due to redundancy. {ECO:0000269|PubMed:15364931}.
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT3G53790
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0026861e-175CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001319741.10.0TRF-like 4
SwissprotQ9M3470.0TRP6_ARATH; Telomere repeat-binding protein 6
TrEMBLA0A178VMQ20.0A0A178VMQ2_ARATH; TRFL4
STRINGAT3G53790.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15921911
Representative plantOGRP13911225
Publications ? help Back to Top
  1. Karamysheva ZN,Surovtseva YV,Vespa L,Shakirov EV,Shippen DE
    A C-terminal Myb extension domain defines a novel family of double-strand telomeric DNA-binding proteins in Arabidopsis.
    J. Biol. Chem., 2004. 279(46): p. 47799-807
    [PMID:15364931]
  2. 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]