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 Rsa1.0_00429.1_g00003.1
Organism
Raphanus sativus
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: 328aa    MW: 35978.6 Da    PI: 5.0011
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00429.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding35.32.7e-114797146
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                             +++WT+eE+  l  +v ++G+g W+tI +          R+  ++k++w++
  Rsa1.0_00429.1_g00003.1 47 KQKWTQEEESALRSGVIKHGPGKWRTILKDPDfsevlFLRSNVDLKDKWRN 97
                             79**********************************955**********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.2E-1444104IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.608.5E-134698IPR009057Homeodomain-like
SMARTSM007172.1E-646101IPR001005SANT/Myb domain
PfamPF002492.2E-84797IPR001005SANT/Myb domain
PROSITE profilePS500907.6774799IPR017877Myb-like domain
CDDcd116604.97E-184898No hitNo description
SMARTSM005260.0012151206IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.101.1E-8152202IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.31E-8152203IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150411.913153235IPR005818Linker 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: 328 aa     Download sequence    Send to blast
MLHYTKAVEP VAVPNSPSRK APIESEFGRL EWKSKTRLTG FVMGAPKQKW TQEEESALRS  60
GVIKHGPGKW RTILKDPDFS EVLFLRSNVD LKDKWRNMSV MPNGWGSRER SRVGVKRTPS  120
LPKQEDTSLA ADSSPLQSDE EMAEEDATGT SAPNVRLDSL IMEAISTIKE PGGSNKTSIG  180
TYIEEQYHAP PDFKRLLSAK LKLSASIGFQ TPLHCLPTEE NIWGHLLENR EVFSLPSSPK  240
TDGDEVSVEA NAQIDPELDR MKTMSVQEAA AIAAQAVAEA EAATAAAEEA AKDAELAEAE  300
AEVAQAFAEE AIKTLKGRYN NCKVMIRA
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00429.1_g00003.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0627362e-78AY062736.1 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-142PREDICTED: telomere repeat-binding factor 1-like
SwissprotQ8VWK41e-99TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A397ZAF51e-123A0A397ZAF5_BRACM; Uncharacterized protein
STRINGBo5g077530.11e-122(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
AT1G49950.35e-91telomere 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]