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 478645
Common NameARALYDRAFT_478645
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MYB
Protein Properties Length: 239aa    MW: 27359.7 Da    PI: 7.0412
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
478645genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding44.43.8e-141663148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+W+ eE e+l   + + G ++W++ ++  g+ R++k+c++rw +yl
           478645 16 RGPWSDEESERLRSFILKNGHHNWRSLPKLAGLMRCGKSCRLRWINYL 63
                     89********************************************97 PP
2Myb_DNA-binding574.4e-1869114148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++T+eE++ ++++++ +G++ W++Ia++++ gRt++++k+ w+++l
           478645  69 RGNFTKEEEDTIIQLHQTHGNK-WSKIASHFP-GRTDNEIKNVWNTHL 114
                      89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.9821163IPR017930Myb domain
SuperFamilySSF466895.14E-2914110IPR009057Homeodomain-like
SMARTSM007175.3E-91565IPR001005SANT/Myb domain
PfamPF002491.5E-121663IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.609.6E-211770IPR009057Homeodomain-like
CDDcd001674.93E-71863No hitNo description
PROSITE profilePS5129425.59864118IPR017930Myb domain
SMARTSM007171.1E-1668116IPR001005SANT/Myb domain
PfamPF002493.8E-1769114IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.1E-2871118IPR009057Homeodomain-like
CDDcd001678.44E-1271114No 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: 239 aa     Download sequence    Send to blast
MGKRRAPCCD KSQVKRGPWS DEESERLRSF ILKNGHHNWR SLPKLAGLMR CGKSCRLRWI  60
NYLRPGLKRG NFTKEEEDTI IQLHQTHGNK WSKIASHFPG RTDNEIKNVW NTHLKKRLMK  120
RNSSSSSDVT HHSVSSTSSS SSSISSILKD VIIISEMPNQ EEEFEEILVE QMACGFEVDA  180
PQSLECLFDD SQIPPPISKP DSLEIHGKSS DHEFWSRLVE PGFDDYNEWL SFLDNQTC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A1e-22161184105MYB PROTO-ONCOGENE PROTEIN
1mse_C9e-23161184105C-Myb DNA-Binding Domain
1msf_C9e-23161184105C-Myb DNA-Binding Domain
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
PlantRegMap478645
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_020886355.11e-177transcription factor MYB58
SwissprotQ9LTV41e-149MYB10_ARATH; Transcription factor MYB10
TrEMBLD7L0K71e-175D7L0K7_ARALL; AtMYB10
STRINGfgenesh2_kg.3__1346__AT3G12820.11e-176(Arabidopsis lyrata)
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-139myb 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]