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 XP_009137122.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB
Protein Properties Length: 392aa    MW: 45514.3 Da    PI: 7.8491
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009137122.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding543.9e-17182228148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT eEd + ++ v+++G + W+ Ia+ ++ gR +kqc++rw+++l
   XP_009137122.1 182 KGQWTSEEDRIVIQFVEKYGLRKWSHIAQVLP-GRIGKQCRERWHNHL 228
                      799*****************************.*************97 PP
2Myb_DNA-binding53.55.3e-17234278147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      +  W++eEd  l++ +k+ G++ W+ Ia++++ gRt++++k++w++ 
   XP_009137122.1 234 KETWSEEEDRVLIQFHKEIGNK-WAEIAKRLP-GRTENSIKNHWNTT 278
                      578*******************.*********.************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129427.803177232IPR017930Myb domain
SuperFamilySSF466893.31E-31180275IPR009057Homeodomain-like
SMARTSM007174.6E-16181230IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.0E-27183234IPR009057Homeodomain-like
PfamPF139217.3E-19185242No hitNo description
CDDcd001671.00E-14185228No hitNo description
PROSITE profilePS5129421.757233283IPR017930Myb domain
SMARTSM007171.1E-16233281IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.4E-23235282IPR009057Homeodomain-like
CDDcd001674.27E-13236279No 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: 392 aa     Download sequence    Send to blast
MENYVGESGF APLNKTVFTR DQEQMKEKNF PFQVVDQSKP TSFLQDFHHL DRDHQFDHHH  60
HHGSTSSNSL LVIQTTSSCV NSSPFEQCSY QDNMVNLVDE HGPMDMEQNN IMMRMIPFDY  120
PPRGITKPMN LVMPDEVSCV SADNDCYKAM SFNKTKPILT RKLSSSSSSS SWKEKKETTL  180
VKGQWTSEED RIVIQFVEKY GLRKWSHIAQ VLPGRIGKQC RERWHNHLRP DIKKETWSEE  240
EDRVLIQFHK EIGNKWAEIA KRLPGRTENS IKNHWNTTKR RQFSKRKCRS KYPRPSLLQD  300
YIKSLGLGAL SSSSVPARGR RRESNKKKDF VAVEEENKKN EDELYGLDRI VPECVFTDDF  360
GFNEKLLVEG CSIDSLLDDL PQPDIHTFAH GF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C3e-461802832105C-Myb DNA-Binding Domain
1msf_C3e-461802832105C-Myb DNA-Binding Domain
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in cellularized but not uncellularized female gametophytes. {ECO:0000269|PubMed:16214903}.
UniprotTISSUE SPECIFICITY: Expressed at high levels in the synergid cells of the female gametophyte, and at lower levels in the endosperm of young seeds and the trichomes of young leaves and sepals. {ECO:0000269|PubMed:16214903, ECO:0000269|PubMed:17693534}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009137122.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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_009137122.10.0PREDICTED: transcription factor MYB98-like
SwissprotQ9S7L20.0MYB98_ARATH; Transcription factor MYB98
TrEMBLM4D7W90.0M4D7W9_BRARP; Uncharacterized protein
STRINGBra012579.1-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]