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.001G088100.2.p
Common NameSb01g007950, SORBIDRAFT_01g007950
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: 566aa    MW: 63267.7 Da    PI: 7.6955
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G088100.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding33.87.9e-11112152445
                           S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
       Myb_DNA-binding   4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                           W ++E+ ll+++++++G g+W  +a+++g +++  qc++++ 
  Sobic.001G088100.2.p 112 WNADEEILLLEGIEMYGLGNWLEVAEHVG-TKSKLQCIDHYT 152
                           *****************************.**********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0250241.9E-17439561IPR016827Transcriptional adaptor 2
SMARTSM002911.6E-104893IPR000433Zinc finger, ZZ-type
PfamPF005693.2E-95091IPR000433Zinc finger, ZZ-type
PROSITE profilePS5013510.8245295IPR000433Zinc finger, ZZ-type
SuperFamilySSF578502.71E-1452115No hitNo description
CDDcd023351.74E-2652100No hitNo description
PROSITE patternPS0135705481IPR000433Zinc finger, ZZ-type
SuperFamilySSF466893.59E-12105158IPR009057Homeodomain-like
PROSITE profilePS5129321.633107159IPR017884SANT domain
SMARTSM007175.0E-10108157IPR001005SANT/Myb domain
PfamPF002498.6E-11111152IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.0E-7112154IPR009057Homeodomain-like
CDDcd001679.83E-11112153No hitNo description
SuperFamilySSF466898.78E-21469554IPR009057Homeodomain-like
PROSITE profilePS509349.524474565IPR007526SWIRM domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006338Biological Processchromatin remodeling
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0009631Biological Processcold acclimation
GO:0009733Biological Processresponse to auxin
GO:0009735Biological Processresponse to cytokinin
GO:0035066Biological Processpositive regulation of histone acetylation
GO:0042127Biological Processregulation of cell proliferation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003682Molecular Functionchromatin binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0003713Molecular Functiontranscription coactivator activity
GO:0004402Molecular Functionhistone acetyltransferase activity
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 566 aa     Download sequence    Send to blast
MGRSRGVPNS GDDDTGHRSK RRRVSGSGGD ATDSISAAIG GAGEGGGKKA LYHCNYCNKD  60
ISGKIRIKCS KCPDFDLCVE CFSVGAEVTP HRSNHPYRVM DNLSFPLICP DWNADEEILL  120
LEGIEMYGLG NWLEVAEHVG TKSKLQCIDH YTTAYMNSPC YPLPDMSHVN GKNRKELLAM  180
AKVQGESKKG TSLLSGELTP KAESPFSPSR VKVEDALGEG PAGRSPSHIA VGANKKASNV  240
GQIKDGANVS KIEDGHVDRS VGVKKPRYSA DEGPSLTELS GYNAKRHEFD PEYDNDAEQA  300
LAEMEFKETD SETDRELKLR VLRIYLSRLE ERKRRKEFIL ERNLLFPNPL EKDLTNEDRE  360
VYHRYKVFMR FLSKEEHEAL IRSVIEERKI RRRIQELQEC RSAGCRTLAE AKIHIEQKRK  420
KEYELNAQKA KESSLIANNK SVQKMNRSMK IESDGNLDPK KGGAGLDSPK TTGLTSVKQW  480
DDWDIVGLPG AELLSASEKL LCCQNRLLPS HYLRMQEVLM QEIFKGSVLK KEDAHVLFKV  540
DPTKVDSVYD MVTKKLGNHE EAPTV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6cw2_C3e-38521675120Transcriptional adapter 2
6cw3_E3e-38521675120Transcriptional adapter 2
6cw3_G3e-38521675120Transcriptional adapter 2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11923KRRRV
2331336RKRRKE
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.85780.0embryo| leaf| panicle| root| shoot
Functional Description ? help Back to Top
Source Description
UniProtRequired for the function of some acidic activation domains, which activate transcription from a distant site. The exact mechanism of action is not yet known. ADA2 and GCN5 function to acetylate nucleosomes, opening up the promoter region (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G088100.2.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
GenBankBT0413330.0BT041333.1 Zea mays full-length cDNA clone ZM_BFb0092G09 mRNA, complete cds.
GenBankKJ7274980.0KJ727498.1 Zea mays clone pUT5357 MYB-related transcription factor (MYBR66) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002463870.10.0transcriptional adapter ADA2
SwissprotQ75LL60.0TADA2_ORYSJ; Transcriptional adapter ADA2
TrEMBLC5X0B40.0C5X0B4_SORBI; Transcriptional adapter
STRINGSb01g007950.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP77083847
Representative plantOGRP2480912
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]