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 RrC5929_p1
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: 268aa    MW: 31567.9 Da    PI: 9.2676
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5929_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding29.91.3e-09741041748
                      HHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  17 kqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +++G + W+ Ia+ ++ gR +kqc++rw+++l
       RrC5929_p1  74 EKYGLRKWSHIAQVLP-GRIGKQCRERWHNHL 104
                      589*************.*************97 PP
2Myb_DNA-binding537.9e-17110152145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      +  W++eEd  l++ +k+ G++ W+ Ia++++ gRt++++k++w+
       RrC5929_p1 110 KETWSEEEDRVLIEFHKEIGNK-WAEIAKRLP-GRTENSIKNHWN 152
                      578*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM007170.8866106IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.1E-1974110IPR009057Homeodomain-like
PfamPF002493.4E-874104IPR001005SANT/Myb domain
CDDcd001673.29E-874104No hitNo description
PROSITE profilePS500907.89874104IPR017877Myb-like domain
SuperFamilySSF466891.16E-2884163IPR009057Homeodomain-like
PROSITE profilePS5129425.955105159IPR017930Myb domain
SMARTSM007174.8E-16109157IPR001005SANT/Myb domain
PfamPF002491.8E-15110152IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.5E-22111158IPR009057Homeodomain-like
CDDcd001671.02E-12112155No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 268 aa     Download sequence    Send to blast
MVDSYESKPR LMNHHFQGSD NQYFIRNHHQ EISLVDGHNP VDLEQNNMIM TRMLPFEYPP  60
TEIIKPTNFM MPDEKYGLRK WSHIAQVLPG RIGKQCRERW HNHLRPDIKK ETWSEEEDRV  120
LIEFHKEIGN KWAEIAKRLP GRTENSIKNH WNATKRRQFS KRKCRSKYPR PSLLQDYIKS  180
LDLGVLSSSS VPARGRRKES NKKYVVAVEE KKKKKKEEKF YGQDRIVPEC VFADGFGFNE  240
NLFEEGCSID SLLDDLPQAD IDAFVHGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C7e-387415920105C-Myb DNA-Binding Domain
1msf_C7e-387415920105C-Myb DNA-Binding Domain
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1195215RRKESNKKYVVAVEEKKKKKK
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ1980821e-178DQ198082.1 Arabidopsis thaliana myb family transcription factor (MYB98) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010436491.11e-137PREDICTED: transcription factor MYB98-like
SwissprotQ9S7L21e-118MYB98_ARATH; Transcription factor MYB98
TrEMBLA0A078FBH91e-130A0A078FBH9_BRANA; BnaC03g62830D protein
TrEMBLA0A078JWI41e-130A0A078JWI4_BRANA; BnaAnng36230D protein (Fragment)
STRINGXP_010436491.11e-137(Camelina sativa)
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-111myb 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]