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.006G175200.2.p
Common NameSb06g025020, SB20O07.10, SORBIDRAFT_06g025020
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 bHLH
Protein Properties Length: 591aa    MW: 64270.4 Da    PI: 4.8526
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G175200.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH45.11.9e-14389441355
                           HHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
                   HLH   3 rahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                           ++h + Er+RR++iN+ f  L++l+P+   ka +  ++Ka+iL++++ Y+k+Lq
  Sobic.006G175200.2.p 389 KNHVMSERKRREKINEMFLILKSLVPSiH-KAMKIHVDKASILTETIAYLKELQ 441
                           5899***********************77.455555*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142151.2E-4822204IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088815.586386440IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474595.89E-17388452IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.108.7E-16389445IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000832.02E-17389445No hitNo description
PfamPF000105.6E-12390441IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.1E-15392446IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009957Biological Processepidermal cell fate specification
GO:0010091Biological Processtrichome branching
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 591 aa     Download sequence    Send to blast
MALSASQVQE ELQQAAERQL MRNQLAAAAR SINWTYALFW SISSTRPGVL TWTDGFYNGE  60
VKTRKISNSV ELTADQLVMQ RSEQLRELYE ALLSGECDRR AARPVGSLSP EDLGDTEWYY  120
VVCMTYAFQP GQGLPGRSFG GNEHVWLRNA HLADSKAFPR AVLAKSASIQ SIICIPLMGG  180
VLELGTTDTV PEDPDLISRA TAAFWEPQCP TYSEEPTSNP SANEAGEAAD IVVFEDQLGH  240
SAMKTTTAAG NEPVSLFNAS LDHITDEIDD FYSLLEEMVV RPLPLEDSLI MVDGSNNFEV  300
PSSPEPPSPG ATTNNNGADT SSSPADGSRA TSFMAWTRSS QSCSDEAVAA VPVIEEPQKL  360
LKKVVAGGEA WANCGGGGTA GTAQESGIKN HVMSERKRRE KINEMFLILK SLVPSIHKAM  420
KIHVDKASIL TETIAYLKEL QRRVQELESS RELTTPSETT TRTTRPRGIS NESARKKLCA  480
GSKRESPALE VDGDVVNKEH PWVLPKDGTS NVTVTVANTD VLLEVQCRWE ELLMTRVFDA  540
IKSLHLDVLS VQASTPDGFM GLKIRAQFAG SGAVVPWMIS EALHKAIGKR *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rru_A2e-193319962226Transcription factor MYC3
4ywc_A2e-193319962226Transcription factor MYC3
4ywc_B2e-193319962226Transcription factor MYC3
5t0f_A1e-193320023188Transcription factor MYC3
5t0q_A1e-193320023188Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1394399ERKRRE
2395400RKRREK
Functional Description ? help Back to Top
Source Description
UniProtPutative transcriptional activator. Control tissue-specific synthesis of anthocyanin pigments in various parts of the maize plant.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G175200.2.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
GenBankAY5423110.0AY542311.1 Sorghum bicolor clone SB20O07 b1-1, b1-2, putative genetic modifier, hypothetical protein, putative NAM protein, putative cis-zeatin O-glucosyltransferases, putative small nuclear ribonucleoprotein, putative cis-zeatin O-glucosyltransferase, putative glutathione peroxidase, putative copper-exporting ATPases, putative serine/threonine dehydratase, and putative actin depolymerizing factor genes, complete cds; and hypothetical protein gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021318745.10.0anthocyanin regulatory R-S protein
SwissprotP130270.0ARRS_MAIZE; Anthocyanin regulatory R-S protein
TrEMBLA0A1Z5REJ00.0A0A1Z5REJ0_SORBI; Uncharacterized protein
STRINGSb06g025020.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP93233109
Representative plantOGRP24471429
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G63650.38e-95bHLH family protein
Publications ? help Back to Top
  1. Swigonov
    Close split of sorghum and maize genome progenitors.
    Genome Res., 2004. 14(10A): p. 1916-23
    [PMID:15466289]
  2. Lai J, et al.
    Gene loss and movement in the maize genome.
    Genome Res., 2004. 14(10A): p. 1924-31
    [PMID:15466290]
  3. Swigonov
    Structure and evolution of the r/b chromosomal regions in rice, maize and sorghum.
    Genetics, 2005. 169(2): p. 891-906
    [PMID:15489523]
  4. Pattanaik S,Xie CH,Yuan L
    The interaction domains of the plant Myc-like bHLH transcription factors can regulate the transactivation strength.
    Planta, 2008. 227(3): p. 707-15
    [PMID:18075757]
  5. Huang ZA, et al.
    The upregulation of NtAN2 expression at low temperature is required for anthocyanin accumulation in juvenile leaves of Lc-transgenic tobacco (Nicotiana tabacum L.).
    J Genet Genomics, 2012. 39(3): p. 149-56
    [PMID:22464474]
  6. Perrot GH,Cone KC
    Nucleotide sequence of the maize R-S gene.
    Nucleic Acids Res., 1989. 17(19): p. 8003
    [PMID:2798145]
  7. Li P, et al.
    Combined bulked segregant sequencing and traditional linkage analysis for identification of candidate gene for purple leaf sheath in maize.
    PLoS ONE, 2018. 13(1): p. e0190670
    [PMID:29304111]