PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.001G156900.1.p
Common NameSb01g013670, SORBIDRAFT_01g013670
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family MYB_related
Protein Properties Length: 300aa    MW: 32928.1 Da    PI: 8.9406
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G156900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding31.34.8e-10555146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                          ++rWT eE+  l  +++++G g W+tI +          R+  ++k++w++
  Sobic.001G156900.1.p  5 KQRWTSEEEAALRAGIARHGVGKWRTILKDPEfsstlCYRSNVDLKDKWRN 55
                          79****************************999999978**********99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.487161IPR017930Myb domain
SuperFamilySSF466894.95E-15260IPR009057Homeodomain-like
SMARTSM007171.2E-6459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.9E-13556IPR009057Homeodomain-like
PfamPF002498.0E-7556IPR001005SANT/Myb domain
CDDcd116602.41E-19657No hitNo description
Gene3DG3DSA:1.10.10.101.5E-18119193IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467854.3E-18119200IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005263.5E-12120185IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150424.028122190IPR005818Linker histone H1/H5, domain H15
PfamPF005381.3E-10123183IPR005818Linker 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:0031627Biological Processtelomeric loop formation
GO:0046686Biological Processresponse to cadmium ion
GO:0000784Cellular Componentnuclear chromosome, telomeric region
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: 300 aa     Download sequence    Send to blast
MGAPKQRWTS EEEAALRAGI ARHGVGKWRT ILKDPEFSST LCYRSNVDLK DKWRNMNVIV  60
STSSSRDKAK TAVKRARTTP KNNEHTMAIS RVTSDIDDEI VDEKHIAPLP SEAKNTSNSK  120
KSHSRLDNII MEAIKNLNEP TGSHRTTIAN YIEEQYWPPS DFDHLLSAKL KDLSTSGKLI  180
KVNRKYRIAP SSPNSEGRSP KMLLLEDVQR APVKIWSDDS KTLTRSQVDA ELARMSTMTA  240
EEASVAAAHA VAEAEAIMAE AEAAAKEAEA AEAEAQAAQA FAEAAFLTLK NRNAAKLMA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.84380.0callus| embryo| root
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats, but may also bind to the single telomeric strand. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00607ChIP-seqTransfer from AT1G49950Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G156900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY2806320.0AY280632.1 Zea mays single myb histone 6 (Smh6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002464176.20.0single myb histone 6
RefseqXP_021306448.10.0single myb histone 6
RefseqXP_021306449.10.0single myb histone 6
SwissprotC0HIA31e-168SMH6_MAIZE; Single myb histone 6
TrEMBLA0A1B6QJ590.0A0A1B6QJ59_SORBI; Uncharacterized protein
STRINGSb01g013670.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP132438110
Representative plantOGRP8551659
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.37e-71telomere repeat binding factor 1
Publications ? help Back to Top
  1. Soderlund C, et al.
    Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.
    PLoS Genet., 2009. 5(11): p. e1000740
    [PMID:19936069]