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 RrC30_p7
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: 321aa    MW: 35732.8 Da    PI: 5.9365
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC30_p7genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding46.49.3e-152976148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g+WT+ Ede+l+ +v++ G g+W++  ++  + R++k+c++rw ++l
         RrC30_p7 29 KGPWTAAEDEILAAYVRENGEGNWNALQKHTCLARCGKSCRLRWANHL 76
                     79******************************************9986 PP
2Myb_DNA-binding50.54.6e-1682125146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      +g++T +E+ l++++++qlG++ W++ a+ ++ gRt++++k++w++
         RrC30_p7  82 KGSFTDDEERLIIQLHAQLGNK-WARMAAQLP-GRTDNEIKNYWNT 125
                      799*******************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.7742476IPR017930Myb domain
SuperFamilySSF466893.67E-2827123IPR009057Homeodomain-like
SMARTSM007171.1E-112878IPR001005SANT/Myb domain
PfamPF002492.3E-132976IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.5E-223083IPR009057Homeodomain-like
CDDcd001675.73E-103176No hitNo description
PROSITE profilePS5129425.45177131IPR017930Myb domain
SMARTSM007176.3E-1681129IPR001005SANT/Myb domain
PfamPF002491.1E-1482125IPR001005SANT/Myb domain
CDDcd001678.00E-1284127No hitNo description
Gene3DG3DSA:1.10.10.603.9E-2584129IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0090406Cellular Componentpollen tube
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 321 aa     Download sequence    Send to blast
MILYGVGTGN DGGSTNHISD GGGRVALKKG PWTAAEDEIL AAYVRENGEG NWNALQKHTC  60
LARCGKSCRL RWANHLRPNL KKGSFTDDEE RLIIQLHAQL GNKWARMAAQ LPGRTDNEIK  120
NYWNTRLKRD SYTSFLTLPY SSSAAPNTQN ATYHNTNNNY SSFSLNPPSS SYPTTTSSSS  180
FLHSHYTPNS SSTSFHTNPV YSMKQELPSS QTPQICDFSN VNNFTYNEKQ NNTDLHRRSI  240
NCSLLEDSLE MNTMQDDIAK LLDWGSDSGE ISNGQSSAVT DDNLVLDVHQ YASLYPADST  300
GAPNDQHNNN NNNNFSWDDL D
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C5e-31271292103C-Myb DNA-Binding Domain
1msf_C5e-31271292103C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator (PubMed:24278028). Binds to 5'-CAACTGTC-3' and/or 5'-TAACAAA-3' motif in target gene promoter to promote their expression (By similarity). Together with MYB101 and MYB120, functions as a male factor that controls pollen tube-synergid interaction in fertilization. Required for pollen tube growth arrest and sperm cell release in the female gametophyte, probably via the regulation of pollen tube-specific gene expression (PubMed:24278028, PubMed:23791732). {ECO:0000250|UniProtKB:O80883, ECO:0000269|PubMed:23791732, ECO:0000269|PubMed:24278028}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893031e-163AC189303.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB030F12, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006413125.11e-98transcription factor MYB97
SwissprotQ9S7736e-94MYB97_ARATH; Transcription factor MYB97
TrEMBLA0A078JI721e-136A0A078JI72_BRANA; BnaAnng23930D protein
STRINGXP_006413125.15e-98(Eutrema salsugineum)
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
AT4G26930.12e-90myb domain protein 97
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]
  2. Zheng Z, et al.
    Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy.
    Plant Physiol., 2017. 174(3): p. 1764-1778
    [PMID:28515145]