PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC172_p9
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: 423aa    MW: 49417.5 Da    PI: 6.8864
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC172_p9genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding58.81.3e-18217263148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT+eEd +l+++v+++G + W+ Ia+ ++ gR +kqc++rw+++l
        RrC172_p9 217 KGQWTAEEDRILIQLVEKYGLRKWSHIAQVLP-GRIGKQCRERWHNHL 263
                      799*****************************.*************97 PP
2Myb_DNA-binding50.64.5e-16269311145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      +  W+++Ed  l++ +k+ G++ W+ Ia++++ gRt++++k++w+
        RrC172_p9 269 KETWSEDEDRVLIEFHKEIGNK-WAEIAKRLP-GRTENSIKNHWN 311
                      578*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129430.067212267IPR017930Myb domain
SuperFamilySSF466892.5E-32215310IPR009057Homeodomain-like
SMARTSM007173.7E-18216265IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.4E-28218270IPR009057Homeodomain-like
CDDcd001672.08E-16220263No hitNo description
PfamPF139215.3E-20220277No hitNo description
PROSITE profilePS5129420.569268318IPR017930Myb domain
SMARTSM007171.2E-15268316IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-21271316IPR009057Homeodomain-like
CDDcd001677.26E-12271314No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010183Biological Processpollen tube guidance
GO:0045697Biological Processregulation of synergid differentiation
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 423 aa     Download sequence    Send to blast
MENYVNESGF APLNQTIFIR DQDHMKKEDF PFEVVDQSKP TSFLQDFHHL DHDNQFDHHH  60
HHQYHGSTSS NPLFGIQMTS SCANNAPYQH CSYQENMVDF YETKPQLMNH HFQAAENSYF  120
TRNHHQEINL VDDNDPMNLE QNNMMMMRMI PFDYPPIETI NKPMNFVMPD EVSCVSADNN  180
SYRAMSFNKT KPLLTRKLSS SSSSSSWKGK KKTTLVKGQW TAEEDRILIQ LVEKYGLRKW  240
SHIAQVLPGR IGKQCRERWH NHLRPDIKKE TWSEDEDRVL IEFHKEIGNK WAEIAKRLPG  300
RTENSIKNHW NATKRRQFSK RKCRSKYPRS SLLQDYIKSL DVGVLSSSSV PARGRRKVSN  360
KKKDVVAVEE KEEEFYGQDM IVPECVFTDD FGFNEKLLEE GCSIDSLLDD LPQPDIDAFV  420
HGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C6e-452153172104C-Myb DNA-Binding Domain
1msf_C6e-452153172104C-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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00442DAPTransfer from AT4G18770Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1760030.0AF176003.2 Arabidopsis thaliana putative transcription factor (MYB98) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018469722.10.0PREDICTED: transcription factor MYB98
SwissprotQ9S7L20.0MYB98_ARATH; Transcription factor MYB98
TrEMBLA0A398AKA50.0A0A398AKA5_BRACM; Uncharacterized protein
STRINGBra013346.1-P0.0(Brassica rapa)
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
AT4G18770.10.0myb 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]