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 Carubv10028573m
Common NameCARUB_v10028573mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MYB
Protein Properties Length: 259aa    MW: 28591.8 Da    PI: 4.5732
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10028573mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding31.63.8e-101443130
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIart 30
                     +g+WT+eEd++l+ +v+++G g W+t +++
  Carubv10028573m 14 KGAWTPEEDQKLIAYVQLHGEGGWRTLPEK 43
                     79************************9876 PP
2Myb_DNA-binding48.91.5e-154892147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     rg +T+eEd+ ++++++  G++ W++Ia+ +  gRt++++k++w++ 
  Carubv10028573m 48 RGEFTPEEDDTIIKLHAIKGNK-WAAIAASLA-GRTDNEIKNYWNTN 92
                     899*******************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.3E-11543IPR009057Homeodomain-like
SuperFamilySSF466895.5E-201189IPR009057Homeodomain-like
SMARTSM00717201345IPR001005SANT/Myb domain
PfamPF002497.7E-81442IPR001005SANT/Myb domain
PROSITE profilePS5129423.6694397IPR017930Myb domain
Gene3DG3DSA:1.10.10.602.5E-224498IPR009057Homeodomain-like
SMARTSM007174.5E-164795IPR001005SANT/Myb domain
PfamPF002491.1E-144893IPR001005SANT/Myb domain
CDDcd001671.96E-115093No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 259 aa     Download sequence    Send to blast
MVRTPCCKEE GIKKGAWTPE EDQKLIAYVQ LHGEGGWRTL PEKADIKRGE FTPEEDDTII  60
KLHAIKGNKW AAIAASLAGR TDNEIKNYWN TNLKKRIKQI KKGLVDPITH NSSSTGTQNA  120
IEPTNNNKPV RSSGSARLLN RVASKYAVDF NRDLLIGLIS SGNRTGEIDP RDSTLLNIMV  180
ETSSSVYNNS SSTLSDDISD NSCFNEFFSN EEIISDDVYT TIDNIDFMEE LKEILNGSGA  240
EIIENASNAA DEIGCWNE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-1514977108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in tryptophan gene activation and in indole-3-acetic acid (IAA) and indolic glucosinolates (IG) biosynthesis. Acts as a direct transcriptional activator of both Trp synthesis genes and Trp secondary metabolism genes. {ECO:0000269|PubMed:15579661, ECO:0000269|PubMed:23580754, ECO:0000269|PubMed:23943862, ECO:0000269|PubMed:9576939}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10028573m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by herbivory. {ECO:0000269|PubMed:23943862}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0082693e-55AB008269.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MSL3.
GenBankAK2273373e-55AK227337.1 Arabidopsis thaliana mRNA for Myb transcription factor homolog, clone: RAFL14-02-G07.
GenBankATU664623e-55U66462.1 Arabidopsis thaliana Myb transcription factor homolog (ATR1) gene, complete cds, receptor-like protein kinase (RLK1) gene, partial cds.
GenBankAY5196423e-55AY519642.1 Arabidopsis thaliana MYB transcription factor (At5g60890) mRNA, complete cds.
GenBankBT0303263e-55BT030326.1 Arabidopsis thaliana unknown protein (At5g60890) mRNA, complete cds.
GenBankCP0026883e-55CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006281446.11e-133transcription factor MYB34
SwissprotO643991e-101MYB34_ARATH; Transcription factor MYB34
TrEMBLR0EUJ10.0R0EUJ1_9BRAS; Uncharacterized protein
STRINGXP_006279548.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM93311637
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60890.12e-99myb domain protein 34
Publications ? help Back to Top
  1. Grubb CD,Abel S
    Glucosinolate metabolism and its control.
    Trends Plant Sci., 2006. 11(2): p. 89-100
    [PMID:16406306]
  2. De Schutter K, et al.
    Arabidopsis WEE1 kinase controls cell cycle arrest in response to activation of the DNA integrity checkpoint.
    Plant Cell, 2007. 19(1): p. 211-25
    [PMID:17209125]
  3. Kim K,Jiang K,Teng SL,Feldman LJ,Huang H
    Using biologically interrelated experiments to identify pathway genes in Arabidopsis.
    Bioinformatics, 2012. 28(6): p. 815-22
    [PMID:22271267]
  4. Guo R, et al.
    Jasmonic acid and glucose synergistically modulate the accumulation of glucosinolates in Arabidopsis thaliana.
    J. Exp. Bot., 2013. 64(18): p. 5707-19
    [PMID:24151308]
  5. Benstein RM, et al.
    Arabidopsis phosphoglycerate dehydrogenase1 of the phosphoserine pathway is essential for development and required for ammonium assimilation and tryptophan biosynthesis.
    Plant Cell, 2013. 25(12): p. 5011-29
    [PMID:24368794]
  6. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  7. Frerigmann H,Gigolashvili T
    MYB34, MYB51, and MYB122 distinctly regulate indolic glucosinolate biosynthesis in Arabidopsis thaliana.
    Mol Plant, 2014. 7(5): p. 814-28
    [PMID:24431192]
  8. Frerigmann H,Gigolashvili T
    Update on the role of R2R3-MYBs in the regulation of glucosinolates upon sulfur deficiency.
    Front Plant Sci, 2014. 5: p. 626
    [PMID:25426131]
  9. Frerigmann H,Glawischnig E,Gigolashvili T
    The role of MYB34, MYB51 and MYB122 in the regulation of camalexin biosynthesis in Arabidopsis thaliana.
    Front Plant Sci, 2015. 6: p. 654
    [PMID:26379682]
  10. Frerigmann H, et al.
    Regulation of Pathogen-Triggered Tryptophan Metabolism in Arabidopsis thaliana by MYB Transcription Factors and Indole Glucosinolate Conversion Products.
    Mol Plant, 2016. 9(5): p. 682-695
    [PMID:26802248]
  11. Stahl E, et al.
    Regulatory and Functional Aspects of Indolic Metabolism in Plant Systemic Acquired Resistance.
    Mol Plant, 2016. 9(5): p. 662-681
    [PMID:26802249]
  12. Bulgakov VP,Veremeichik GN,Grigorchuk VP,Rybin VG,Shkryl YN
    The rolB gene activates secondary metabolism in Arabidopsis calli via selective activation of genes encoding MYB and bHLH transcription factors.
    Plant Physiol. Biochem., 2016. 102: p. 70-9
    [PMID:26913794]
  13. Miao H, et al.
    Glucose enhances indolic glucosinolate biosynthesis without reducing primary sulfur assimilation.
    Sci Rep, 2016. 6: p. 31854
    [PMID:27549907]