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 Rsa1.0_20261.1_g00001.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB_related
Protein Properties Length: 182aa    MW: 21045.5 Da    PI: 5.8358
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_20261.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.52.4e-162166148
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                             rg +T+eE e ++++++ lG++ W++Ia++++ gRt++++k+ w+++l
  Rsa1.0_20261.1_g00001.1 21 RGDFTKEEVETIIHLHQVLGNK-WSKIASHLP-GRTDNEIKNVWNTHL 66
                             899*******************.*********.************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS500904.368115IPR017877Myb-like domain
SuperFamilySSF466896.13E-22275IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.9E-10227IPR009057Homeodomain-like
PROSITE profilePS5129423.71670IPR017930Myb domain
SMARTSM007171.6E-142068IPR001005SANT/Myb domain
PfamPF002495.4E-152166IPR001005SANT/Myb domain
CDDcd001671.04E-102466No hitNo description
Gene3DG3DSA:1.10.10.601.2E-222867IPR009057Homeodomain-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: 182 aa     Download sequence    Send to blast
MRCGKSCRLR WINYLRPGLK RGDFTKEEVE TIIHLHQVLG NKWSKIASHL PGRTDNEIKN  60
VWNTHLKKRW VKSNSSASDV TNQASSSSSS SVSNDVINSE KHSQEEELEE ILVEHIPYGF  120
EVNAPQSLEY LFEDRQIPPL PISKPDSLEI HRQSHDELCS QMVEPGLDVY NEWLNYFDNQ  180
TL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-1826940107B-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_20261.1_g00001.1
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5195866e-68AY519586.1 Arabidopsis thaliana MYB transcription factor (At3g12820) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013651974.11e-110transcription factor MYB63-like
SwissprotQ9LTV44e-78MYB10_ARATH; Transcription factor MYB10
TrEMBLA0A3P5ZUX01e-108A0A3P5ZUX0_BRACM; Uncharacterized protein
STRINGBra001472.1-P1e-108(Brassica rapa)
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-63myb 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]