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 Cagra.5641s0047.1.p
Organism
Capsella grandiflora
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: 240aa    MW: 27374.7 Da    PI: 6.937
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.5641s0047.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding47.34.7e-151663148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rg+W+ eE e+l   +++ G ++W++ ++  g+ R++k+c++rw +yl
  Cagra.5641s0047.1.p 16 RGPWSDEESERLRAFIEKNGHHNWRSLPKLAGLMRCGKSCRLRWINYL 63
                         89********************************************97 PP
2Myb_DNA-binding53.46.1e-1769114148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          rg++T+eE++ ++++++ +G++ W+ Ia++++ gRt++++k+ w+++l
  Cagra.5641s0047.1.p  69 RGNFTKEEEDTIIHLHQAHGNK-WSMIASHFP-GRTDNEIKNVWNTHL 114
                          89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.1331163IPR017930Myb domain
SuperFamilySSF466891.63E-2914110IPR009057Homeodomain-like
SMARTSM007174.5E-101565IPR001005SANT/Myb domain
PfamPF002492.8E-131663IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.9E-211770IPR009057Homeodomain-like
CDDcd001674.61E-81863No hitNo description
PROSITE profilePS5129424.82964118IPR017930Myb domain
SMARTSM007174.2E-1568116IPR001005SANT/Myb domain
PfamPF002492.7E-1569114IPR001005SANT/Myb domain
CDDcd001673.65E-1071114No hitNo description
Gene3DG3DSA:1.10.10.601.1E-2771118IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 240 aa     Download sequence    Send to blast
MGKKRAPCCD KSQVRRGPWS DEESERLRAF IEKNGHHNWR SLPKLAGLMR CGKSCRLRWI  60
NYLRPGLKRG NFTKEEEDTI IHLHQAHGNK WSMIASHFPG RTDNEIKNVW NTHLKKRLMK  120
SNSLSSSSDA TNQSLSSTSS SSSSISSVLK DVIRSSEKPN QEEEFEEILV EQIACGFEVN  180
APQSLECLFE DSHIPPPTSK PDLLEINGKS DNEFWSRLLV EPGFDDYNEW LNFLDNQTL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-22161187108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression. Necessary for plant survival in alkaline soil where iron availability is greatly restricted. Triggers tolerance to nickel (Ni) and zinc (Zn) ions. {ECO:0000269|PubMed:24278034}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00352DAPTransfer from AT3G12820Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.5641s0047.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Accumulates strongly in the root stele and in the outer layers of the lateral roots when exposed to iron (Fe)-deficient conditions (PubMed:24278034). Slightly induced by ethylene and by darkness conditions (PubMed:9839469). Accumulates upon potassium (K) depletion (PubMed:15489280). Induced by zinc (Zn) and cadmium (Cd) ions (PubMed:18088336). {ECO:0000269|PubMed:15489280, ECO:0000269|PubMed:18088336, ECO:0000269|PubMed:24278034, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5195860.0AY519586.1 Arabidopsis thaliana MYB transcription factor (At3g12820) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006300061.11e-176transcription factor MYB10
SwissprotQ9LTV41e-135MYB10_ARATH; Transcription factor MYB10
TrEMBLR0HT361e-175R0HT36_9BRAS; Uncharacterized protein
STRINGCagra.5641s0047.1.p1e-177(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM140961624
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12820.11e-127myb domain protein 10
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]