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 RrC1095_p5
Organism
Raphanus raphanistrum
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
Protein Properties Length: 282aa    MW: 32871.5 Da    PI: 8.4749
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1095_p5genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding43.95.5e-141663148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g W++eEde+l   +  +G  +W+t++ + g+ R +k+c++rw +yl
       RrC1095_p5 16 KGFWSPEEDEKLRSFILSHGHSCWTTVPIKAGLQRNGKSCRLRWINYL 63
                     688*******************************************97 PP
2Myb_DNA-binding46.68e-1574114648
                      HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   6 teEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +eE+e++ + +  lG++ W++Ia++++ gRt++++k++w+++l
       RrC1095_p5  74 AEEEEIIMNFHSSLGNK-WSRIAKYLP-GRTDNEIKNYWHSHL 114
                      7****************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129414.9431163IPR017930Myb domain
SuperFamilySSF466895.5E-2713110IPR009057Homeodomain-like
SMARTSM007171.3E-91565IPR001005SANT/Myb domain
PfamPF002491.5E-111763IPR001005SANT/Myb domain
CDDcd001671.21E-71963No hitNo description
Gene3DG3DSA:1.10.10.605.6E-201970IPR009057Homeodomain-like
PROSITE profilePS5129421.74464118IPR017930Myb domain
SMARTSM007175.8E-1268116IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.609.8E-2371117IPR009057Homeodomain-like
CDDcd001673.24E-973114No hitNo description
PfamPF002496.7E-1374114IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009751Biological Processresponse to salicylic acid
GO:0010018Biological Processfar-red light signaling pathway
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 282 aa     Download sequence    Send to blast
MVKTKAGERP KQRQRKGFWS PEEDEKLRSF ILSHGHSCWT TVPIKAGLQR NGKSCRLRWI  60
NYLRPGLKRD MINAEEEEII MNFHSSLGNK WSRIAKYLPG RTDNEIKNYW HSHLKKRWLK  120
SQRLQHTTSS ESLVACEKRN PQTLISNHVI SFQTLPEKSS SPPSQESLDN NNKNNYPCSS  180
GPPEIPRPFF SEWFPSSDPH FDHSSDLTES NHNQTQTQTV QGPASDYEEA GDVINRFHYN  240
EMVMDNSNWT LNDVVFGSKW QKQEHKIDRD HSYCTSSDYL FS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-22161177107B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that promotes photomorphogenesis in the light by participating in the transmission of phytochrome A (phyA) signals to downstream responses (PubMed:11581165, PubMed:19482971). Probably acts by activating expression of light-induced genes. In darkness, its degradation prevents the activation of light-induced genes (PubMed:11581165). {ECO:0000269|PubMed:11581165, ECO:0000269|PubMed:19482971}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By hormones or elicitors treatment. By exposure to abiotic stress. {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
GenBankAY5196091e-127AY519609.1 Arabidopsis thaliana MYB transcription factor (At4g25560) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018481933.11e-164PREDICTED: transcription factor LAF1
SwissprotQ9M0K41e-134LAF1_ARATH; Transcription factor LAF1
TrEMBLM4DRL11e-153M4DRL1_BRARP; Uncharacterized protein
STRINGBra019154.1-P1e-154(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G25560.11e-120myb domain protein 18
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]