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 RrC489_p4
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: 303aa    MW: 35419.4 Da    PI: 9.1619
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC489_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding41.82.6e-1386139148
                      TSSS-HHHHH.......HHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEde.......llvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT eEd        +l+++v+++G + W+ Ia+ ++ gR +kqc++rw+++l
        RrC489_p4  86 KGQWTSEEDRvivldnrILIQLVEKYGLRKWSHIAQVLP-GRIGKQCRERWYNHL 139
                      68899999853333333899*******************.*************97 PP
2Myb_DNA-binding48.42.2e-15145187145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      +  W++eE   l++ +k+ G++ W+ I+++++ gRt++++k++w+
        RrC489_p4 145 KETWSEEENRVLIEFHKEIGNK-WTEIMKRLP-GRTENSIKNHWN 187
                      578*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129424.1781143IPR017930Myb domain
SuperFamilySSF466891.15E-2784186IPR009057Homeodomain-like
SMARTSM007179.3E-1285141IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.0E-2587147IPR009057Homeodomain-like
CDDcd001675.47E-1389139No hitNo description
PfamPF139217.4E-1689153No hitNo description
SMARTSM007171.0E-12144192IPR001005SANT/Myb domain
PROSITE profilePS5129417.935144194IPR017930Myb domain
CDDcd001677.19E-9147190No hitNo description
Gene3DG3DSA:1.10.10.604.9E-20148193IPR009057Homeodomain-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: 303 aa     Download sequence    Send to blast
MVDEHGPMDM EQNNTMMMMT HFDYPPRGIT KPMNFVMADE VSCVSADIDS YKTMSLNKTK  60
PSLTRKLSSF SSSSSWKEKE KTTLVKGQWT SEEDRVIVLD NRILIQLVEK YGLRKWSHIA  120
QVLPGRIGKQ CRERWYNHLR PDIKKETWSE EENRVLIEFH KEIGNKWTEI MKRLPGRTEN  180
SIKNHWNATK RRQFSKRKCR SKYPRPSLLQ DYIKSLDLEA LSSSSVPARG RRRESNKKKD  240
IRGVEEKKKN KEDVLCGQDR IVPECVFIDD FGFNENLHEE GCSIDSLLGE FLQPDIDAFA  300
HGF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A6e-41841942105MYB PROTO-ONCOGENE PROTEIN
1mse_C5e-41841942105C-Myb DNA-Binding Domain
1msf_C5e-41841942105C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds to the motif 5'-GTAACNT-3' in the promoter of target genes (e.g. DD11 and DD18) and promotes their expression within synergid cells (e.g. in the filiform apparatus) in ovules (PubMed:16214903, PubMed:17693534, PubMed:18410484, PubMed:17937500). Required for the formation of the filiform apparatus during synergid cell differentiation in the female gametophyte (PubMed:16214903). Involved in pollen tube guidance to the micropyle (PubMed:16214903, PubMed:17937500, PubMed:23093426). {ECO:0000269|PubMed:16214903, ECO:0000269|PubMed:17693534, ECO:0000269|PubMed:17937500, ECO:0000269|PubMed:18410484, ECO:0000269|PubMed:23093426}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018479204.10.0PREDICTED: transcription factor MYB98-like
SwissprotQ9S7L21e-162MYB98_ARATH; Transcription factor MYB98
TrEMBLA0A078JE251e-176A0A078JE25_BRANA; BnaC07g50190D protein
STRINGBo7g106240.11e-174(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58692847
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18770.11e-157myb domain protein 98
Publications ? help Back to Top
  1. Mendes MA, et al.
    Live and let die: a REM complex promotes fertilization through synergid cell death in Arabidopsis.
    Development, 2016. 143(15): p. 2780-90
    [PMID:27338615]