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 Neem_8971_f_1
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family MYB_related
Protein Properties Length: 275aa    MW: 30910.8 Da    PI: 10.5566
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_8971_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.17.2e-12555146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                     +++WT+eE+  l+ +v ++G g W+tI +          R+  ++k++w++
    Neem_8971_f_1  5 KQKWTQEEEAALKAGVIKHGAGKWRTILKDPEfsgvlYLRSNVDLKDKWRN 55
                     79***********************************88***********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.018158IPR017930Myb domain
SuperFamilySSF466892.94E-15270IPR009057Homeodomain-like
SMARTSM007175.3E-7459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.5E-13456IPR009057Homeodomain-like
PfamPF002493.0E-8555IPR001005SANT/Myb domain
CDDcd116601.35E-18656No hitNo description
SuperFamilySSF467857.07E-17120201IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005262.5E-13121186IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.102.4E-14121191IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150423.106123191IPR005818Linker histone H1/H5, domain H15
PfamPF005382.4E-7128184IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
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:0033613Molecular Functionactivating transcription factor binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0070491Molecular Functionrepressing transcription factor binding
GO:1990841Molecular Functionpromoter-specific chromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 275 aa     Download sequence    Send to blast
MGAPKQKWTQ EEEAALKAGV IKHGAGKWRT ILKDPEFSGV LYLRSNVDLK DKWRNMSVMT  60
NGWGSREKSR LAVKRIPHVP KSEESPLALG ATVGQSDEEE IVDAKPLAVT GGMPQIAAAP  120
KRSIVRLDNL IMEAITTVKE PGGCNKTTIA AYIEEQYWAP PDFKRLLSAK LKYLAATGKL  180
IKIKRKYRIA PTMPFSDRRR NPMSVLEGRQ RISHKIDNED VNVLSKSQID LELAKIRNDT  240
SLMNTNRQQR ATNRVHFLID SRFHACPSVT LPVFV
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00607ChIP-seqTransfer from AT1G49950Download
Motif logo
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006486912.11e-155telomere repeat-binding factor 1
SwissprotQ8VWK41e-107TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLV4S6L71e-154V4S6L7_9ROSI; Uncharacterized protein
STRINGXP_006486912.11e-155(Citrus sinensis)
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-110telomere 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]