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_009108388.1
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: 426aa    MW: 49608.8 Da    PI: 7.0691
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009108388.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding60.63.3e-19217263148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g WT+eEd++lv++v+++G + W+ Ia+ ++ gR +kqc++rw+++l
   XP_009108388.1 217 KGQWTAEEDKILVQLVEKYGLRKWSHIAQVLP-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+
   XP_009108388.1 269 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 profilePS5129429.396212267IPR017930Myb domain
SuperFamilySSF466891.76E-32215310IPR009057Homeodomain-like
SMARTSM007177.0E-18216265IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.6E-28218270IPR009057Homeodomain-like
CDDcd001673.78E-16220263No hitNo description
PfamPF139217.7E-20220277No hitNo description
PROSITE profilePS5129420.569268318IPR017930Myb domain
SMARTSM007171.2E-15268316IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-21271316IPR009057Homeodomain-like
CDDcd001677.60E-12271314No 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: 426 aa     Download sequence    Send to blast
MENYVDESGF APLNLTKFTR DEEHMKEEDF PFEVVDQSKP TSFLQDFHHL DHDHQFDHHC  60
HHHHGSTSSN PSLLGAPRTL SCINKVPLQH CSYQENLVDF YESKPHLMNH HFQASDNQYF  120
TRDHHHQEIS LVDEHNPVDL EQNNMMMMRM LPFEYPPTAI IKPTNFMMPD EVSCVSADNN  180
CYKAMSFNKT KPFLTRNLSS SSSSSSWKGK NNTTLVKGQW TAEEDKILVQ LVEKYGLRKW  240
SHIAQVLPGR IGKQCRERWH NHLRPDIKKE TWSEDEDRVL IEFHKEIGNK WAEIAKRLPG  300
RTENSIKNHW NATKRRQFSK RKCRSKYPRP SLLQDYIKSL DLGVLSSSSV PARGRRKESN  360
KKKDIVAVEE KKKKEEKFYG QDRVVPECVF ADGFGFNENL LEEGCSIDSL LDDFPQADID  420
AFVHGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C1e-4419731838159MYB PROTO-ONCOGENE PROTEIN
1h89_C1e-4419731838159MYB PROTO-ONCOGENE PROTEIN
1mse_C1e-442153172104C-Myb DNA-Binding Domain
1msf_C1e-442153172104C-Myb DNA-Binding Domain
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1354373RRKESNKKKDIVAVEEKKKK
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_009108388.1
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_009108388.10.0PREDICTED: transcription factor MYB98-like
SwissprotQ9S7L20.0MYB98_ARATH; Transcription factor MYB98
TrEMBLA0A397YHQ60.0A0A397YHQ6_BRACM; Uncharacterized protein
TrEMBLM4DWU60.0M4DWU6_BRARP; Uncharacterized protein
STRINGBra020992.1-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]