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 RrC39_p10
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: 252aa    MW: 28980.2 Da    PI: 8.0261
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC39_p10genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding43.57.4e-142269148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g W++eEde+l + +  +G  +W+t++ + g+ R +k+c++rw +yl
        RrC39_p10 22 KGFWSPEEDEKLSRFILSHGHSCWTTVPIKAGLQRNGKSCRLRWINYL 69
                     688*******************************************97 PP
2Myb_DNA-binding48.42.2e-1579120548
                      -HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   5 TteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      ++eE+e+++  +  lG++ W++Ia++++ gRt++++k++w+++l
        RrC39_p10  79 SAEEEEIILTFHSSLGNK-WSKIAQYLP-GRTDNEIKNYWHSHL 120
                      89****************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129414.4081769IPR017930Myb domain
SuperFamilySSF466892.68E-2719116IPR009057Homeodomain-like
SMARTSM007171.6E-92171IPR001005SANT/Myb domain
PfamPF002492.1E-112369IPR001005SANT/Myb domain
CDDcd001679.52E-82569No hitNo description
Gene3DG3DSA:1.10.10.601.7E-192576IPR009057Homeodomain-like
PROSITE profilePS5129422.23670124IPR017930Myb domain
SMARTSM007172.7E-1374122IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.1E-2377123IPR009057Homeodomain-like
CDDcd001671.76E-1079120No hitNo description
PfamPF002491.2E-1379120IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 252 aa     Download sequence    Send to blast
MFQNREMAKM KSGERLKQRQ RKGFWSPEED EKLSRFILSH GHSCWTTVPI KAGLQRNGKS  60
CRLRWINYLR PGLKRDMISA EEEEIILTFH SSLGNKWSKI AQYLPGRTDN EIKNYWHSHL  120
KKRWLTTHSS QHAPSISSSS GSRVSCGERN TQTLVPNHVI SFQGLPDKTS SSPSQESNNN  180
YLCSSGPEEI PRLFFSEWFS SSDVTDSKHN QAPSIEGTIS DYQEPGDVDQ FHYNEMMMNN  240
SNWTLDDVVF SS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-23221237107B-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-136AY519609.1 Arabidopsis thaliana MYB transcription factor (At4g25560) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018463683.10.0PREDICTED: transcription factor LAF1-like
SwissprotQ9M0K41e-126LAF1_ARATH; Transcription factor LAF1
TrEMBLA0A398AU451e-140A0A398AU45_BRACM; Uncharacterized protein
STRINGBra019154.1-P1e-135(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-124myb 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]