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 Cc02_g19920
Common NameGSCOC_T00014571001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family MYB_related
Protein Properties Length: 305aa    MW: 33200.9 Da    PI: 10.0815
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc02_g19920genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding36.31.3e-11555146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                     +++WT+eE+  l+ +v ++G+g W+tI +          R+  ++k++w++
      Cc02_g19920  5 KQKWTPEEEAALKAGVLKHGPGKWRTILKDPEfsgvlCLRSNVDLKDKWRN 55
                     79***********************************66**********99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.232158IPR017930Myb domain
SuperFamilySSF466892.3E-15268IPR009057Homeodomain-like
SMARTSM007177.3E-7459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.3E-14456IPR009057Homeodomain-like
PfamPF002491.1E-8555IPR001005SANT/Myb domain
CDDcd116601.60E-18656No hitNo description
SuperFamilySSF467857.07E-17117199IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005262.6E-10118183IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.102.0E-14119190IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150422.319120188IPR005818Linker histone H1/H5, domain H15
PfamPF005388.7E-8125181IPR005818Linker 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: 305 aa     Download sequence    Send to blast
MGAPKQKWTP EEEAALKAGV LKHGPGKWRT ILKDPEFSGV LCLRSNVDLK DKWRNMSVMA  60
NGWGSRERAR LALKRMNQAA KQDDSPMAIS NLAQSDDDNV DPRPHATSSG SPQIGSSKRS  120
IIRLDNLIME AINNLREPGG SNKTTIAAYI EDEYWAPPNF KRLLSSKLKY LSATGKLIKM  180
KRKYRIAPTS ALSDKRRKPS TPLMEGQLEG RQRVSPIIDQ DGMGALTKSQ IDLELAKMRS  240
MTPEEAAAAA AQAVAEAEAA IAEAEEAARE AEAAEADAEA AQAFAEAAMK TLKGRSTPRM  300
MVRA*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1180197KRKYRIAPTSALSDKRRK
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
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_027112655.10.0telomere repeat-binding factor 1
RefseqXP_027162481.10.0telomere repeat-binding factor 1
SwissprotQ8VWK41e-104TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLA0A068TPK30.0A0A068TPK3_COFCA; Uncharacterized protein
STRINGXP_009606142.11e-138(Nicotiana tomentosiformis)
STRINGPGSC0003DMT4000595431e-138(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA28642448
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.33e-92telomere 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]