PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Genemark1.2391_g
Common NameCOCSUDRAFT_61601
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Trebouxiophyceae; Trebouxiophyceae incertae sedis; Coccomyxaceae; Coccomyxa; Coccomyxa subellipsoidea
Family MYB_related
Protein Properties Length: 361aa    MW: 39990.2 Da    PI: 9.6039
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Genemark1.2391_ggenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding29.12.3e-091162147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47
                      +++WT+eE+  l  +v+++G g W++I +         +R+  ++k++w+++
  Genemark1.2391_g 11 KQKWTEEEERALRTGVERFGVGKWRLIQKDEIlgpqlINRSNVDLKDKWRNL 62
                      79**************************98766799989***********97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129410.961667IPR017930Myb domain
SuperFamilySSF466892.01E-15865IPR009057Homeodomain-like
SMARTSM007172.1E-81065IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.2E-141162IPR009057Homeodomain-like
PfamPF002491.1E-81162IPR001005SANT/Myb domain
CDDcd116604.22E-191263No hitNo description
SMARTSM005267.4E-4211280IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150415.399213288IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467859.98E-8217287IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.105.8E-9218277IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005381.6E-5218277IPR005818Linker 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: 361 aa     Download sequence    Send to blast
MSQVKRLGVS KQKWTEEEER ALRTGVERFG VGKWRLIQKD EILGPQLINR SNVDLKDKWR  60
NLNMDVFGSR GDKRGSRAKG RGKARQKPAA APAPVLDTPE KVWSLQPAHP HAAGMPLMGR  120
ADEALMWQQE VLVNRQRKRK RRPERAPEAN APIPYRGSSG ALRTLQEVAL GPDMDDPLPP  180
RRRRRKPRAL LDDDEDEEEE NGEEPAADPH GRTGPIPDDM VVAAIISLQD PVGSHPEDIS  240
RWIESHYASH YAVTPSFKRT VRGTLRRMVE AGRLETVPNH INLFRLGGVV RQLSQEAGME  300
WPRAKPGSTP LDSRTAVESA EAAAKAVAEA EEAAALATRL MAAANRYEQE AELADPGAVE  360
*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1135141QRKRKRR
2136141RKRKRR
3179186PRRRRRKP
4181187RRRRKPR
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00652PBMTransfer from LOC_Os01g51154Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMap-Retrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_005649926.10.0hypothetical protein COCSUDRAFT_61601
TrEMBLI0Z4130.0I0Z413_COCSC; Uncharacterized protein
STRINGXP_005649926.10.0(Coccomyxa subellipsoidea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
ChlorophytaeOGCP3956912
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.36e-15telomere repeat binding factor 1
Publications ? help Back to Top
  1. Blanc G, et al.
    The genome of the polar eukaryotic microalga Coccomyxa subellipsoidea reveals traits of cold adaptation.
    Genome Biol., 2012. 13(5): p. R39
    [PMID:22630137]