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 Sobic.003G059200.1.p
Common NameSb03g005080, SORBIDRAFT_03g005080
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: 303aa    MW: 32946.1 Da    PI: 8.8408
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.003G059200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding33.78.5e-11555146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                          ++rWT eE+  l  +v+++G g+W+ I +          R+  ++k++w++
  Sobic.003G059200.1.p  5 KQRWTSEEEAALRAGVARHGVGNWRMILNDPElgstlRYRSNVDLKDKWRN 55
                          79***************************99999**999***********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.514161IPR017930Myb domain
SuperFamilySSF466893.82E-15258IPR009057Homeodomain-like
SMARTSM007179.7E-7459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.609.0E-13556IPR009057Homeodomain-like
PfamPF002494.3E-7556IPR001005SANT/Myb domain
CDDcd116602.00E-20657No hitNo description
SuperFamilySSF467851.85E-17120195IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.101.8E-18120193IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005266.0E-13121186IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150424.13123191IPR005818Linker histone H1/H5, domain H15
PfamPF005381.0E-10124184IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0031627Biological Processtelomeric loop formation
GO:0000784Cellular Componentnuclear chromosome, telomeric region
GO:0000786Cellular Componentnucleosome
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 303 aa     Download sequence    Send to blast
MGAPKQRWTS EEEAALRAGV ARHGVGNWRM ILNDPELGST LRYRSNVDLK DKWRNMNVIV  60
TSSSARDRGR TSTRRTRAAP KNSDQSLPMS TVTSDVDDEI VDVNPIASVV PVESWNTSNS  120
KKSHSRLDNI IMEAIKNLNE PTGSHRTTIA NYIEEQYWPP SDFDHLLSAK LKDLATSGKL  180
LKVNRKYRIA PSSPRLEGRS PKMMLLEDVQ GEPLKLGSDA SRTLTRSQID AELVRMATMT  240
AEAAAAAAAH AVAEAEAIMA EAEAAAREAE AAEAEARAAQ AFAEAAVLTL KNRNAAKLMA  300
QA*
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.003G059200.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY2806300.0AY280630.1 Zea mays single myb histone 5 (Smh5) mRNA, complete cds.
GenBankBT0372970.0BT037297.1 Zea mays full-length cDNA clone ZM_BFb0161M01 mRNA, complete cds.
GenBankBT0862120.0BT086212.1 Zea mays full-length cDNA clone ZM_BFc0130J16 mRNA, complete cds.
GenBankDQ2450140.0DQ245014.1 Zea mays clone 12204 mRNA sequence.
GenBankJX4699110.0JX469911.1 Zea mays subsp. mays clone UT3159 MYB-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002457295.10.0single myb histone 5
SwissprotQ6WLH31e-144SMH5_MAIZE; Single myb histone 5
TrEMBLC5XP520.0C5XP52_SORBI; Uncharacterized protein
STRINGSb03g005080.10.0(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
AT1G49950.34e-56telomere 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]