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.007G178300.1.p
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
Protein Properties Length: 258aa    MW: 28881.2 Da    PI: 5.9053
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.007G178300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.81.8e-161461148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                          rg+WT+eEd++l+  +  +G  +W+++++  g+ R++k+c++rw +yl
  Sobic.007G178300.1.p 14 RGPWTAEEDKKLISFILTHGRCCWRAVPKLAGLLRCGKSCRLRWTNYL 61
                          89******************************99************97 PP
2Myb_DNA-binding53.65e-1770111447
                           S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
       Myb_DNA-binding   4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                            +t E++l +d++++lG++ W++Ia++++ gRt++++k++w+++
  Sobic.007G178300.1.p  70 LSTAEEQLVIDLHAKLGNR-WSKIAAKLP-GRTDNEIKNHWNTH 111
                           5899***************.*********.************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.1E-22562IPR009057Homeodomain-like
PROSITE profilePS5129414.274961IPR017930Myb domain
SuperFamilySSF466894.12E-2711108IPR009057Homeodomain-like
SMARTSM007174.2E-131363IPR001005SANT/Myb domain
PfamPF002492.8E-151461IPR001005SANT/Myb domain
CDDcd001674.64E-101661No hitNo description
PROSITE profilePS5129427.18162116IPR017930Myb domain
Gene3DG3DSA:1.10.10.608.0E-2563117IPR009057Homeodomain-like
SMARTSM007177.9E-1566114IPR001005SANT/Myb domain
CDDcd001672.27E-1171112No hitNo description
PfamPF002498.4E-1571111IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 258 aa     Download sequence    Send to blast
MGRQPCCDKQ GVKRGPWTAE EDKKLISFIL THGRCCWRAV PKLAGLLRCG KSCRLRWTNY  60
LRPDLKRGLL STAEEQLVID LHAKLGNRWS KIAAKLPGRT DNEIKNHWNT HIKKKLIKMG  120
LDPATHQPLS NSNATSSQST VTDESAKSSD FREELSLKDD SHREVPLSTD SSEQSSWPES  180
STNGCDQDPE LLVNWPDLLM DEPWLNFMSS NDELGNVEGA LPWDGTTDWL LDYQDFGMCS  240
SNSVDNSTFH ASNGSNF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-27141167108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in mature flowers and decreases upon pollination. {ECO:0000269|PubMed:15805488}.
UniprotTISSUE SPECIFICITY: Restricted to the petals, with the highest expression in the limb. {ECO:0000269|PubMed:15805488}.
Functional Description ? help Back to Top
Source Description
UniProtR2R3 MYB-type transcription factor controlling the production of volatile benzoides in flowers by regulating the shikimate pathway, namely by activation of the 5-enol-pyruvylshikimate-3-phosphate synthase gene. This scent, mostly produced in the evening and night by the petals, attracts the pollinators. Anthocyanins production is not controlled by ODO1 as color and scent are produced at different stages of development. {ECO:0000269|PubMed:15805488}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.007G178300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Increases before the onset of volatile emission at the end of the light period, peaks at night and decreases when volatile emission declines early morning.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0684100.0BT068410.1 Zea mays full-length cDNA clone ZM_BFb0166A10 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021320727.10.0protein ODORANT1 isoform X1
SwissprotQ50EX68e-88ODO1_PETHY; Protein ODORANT1
TrEMBLA0A1Z5RBI90.0A0A1Z5RBI9_SORBI; Uncharacterized protein
STRINGSb07g024970.11e-177(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP7938563
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G12350.12e-84myb domain protein 42
Publications ? help Back to Top
  1. Verdonk JC,Haring MA,van Tunen AJ,Schuurink RC
    ODORANT1 regulates fragrance biosynthesis in petunia flowers.
    Plant Cell, 2005. 17(5): p. 1612-24
    [PMID:15805488]