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 XP_009116728.1
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: 272aa    MW: 31008.8 Da    PI: 7.5565
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009116728.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding431e-131459146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                     +g+W +eEde l++ vk++G+++W++I ++  + Rt+k+c++rw +
   XP_009116728.1 14 KGPWKAEEDEVLINHVKRYGPRDWSSIRSKGLLQRTGKSCRLRWVN 59
                     79*************************8887799**********87 PP
2Myb_DNA-binding44.14.9e-1470110345
                      SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      +++++E++  +d+  q+G++ W++Ia +++ gRt++++k++w 
   XP_009116728.1  70 KFSADEEKTVIDLQSQFGNK-WARIATYLP-GRTDNDVKNFWS 110
                      79******************.*********.***********6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.4E-21862IPR009057Homeodomain-like
PROSITE profilePS5129421.64965IPR017930Myb domain
SuperFamilySSF466891.13E-2711109IPR009057Homeodomain-like
SMARTSM007177.1E-111363IPR001005SANT/Myb domain
CDDcd001675.94E-111661No hitNo description
PfamPF139216.7E-121767No hitNo description
Gene3DG3DSA:1.10.10.603.1E-1863115IPR009057Homeodomain-like
PROSITE profilePS5129417.62566117IPR017930Myb domain
SMARTSM007173.5E-1267115IPR001005SANT/Myb domain
PfamPF002493.3E-1270110IPR001005SANT/Myb domain
CDDcd001671.40E-970109No 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: 272 aa     Download sequence    Send to blast
MKKMEATKKE DIKKGPWKAE EDEVLINHVK RYGPRDWSSI RSKGLLQRTG KSCRLRWVNK  60
LRPNLKNGCK FSADEEKTVI DLQSQFGNKW ARIATYLPGR TDNDVKNFWS SRLKRLARIL  120
HNSSDASSSS CFDPKPNKGK NVKPIQSQSF GLVEEETRAS SATTSKILPY SSPLSDQVDD  180
EALIRSPELG IKLENHQPFT FGTDLDDPFF YDILGPADSS EPLFGLPQPF FEPSPAPRRF  240
RHVSKDDEES DVFLHDFPAD MFDQVDDQTR SP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C3e-271111524126MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strict spatial and temporal transcriptional activation leading to a specific expression in the male germline cells; this specific expression pattern is dependent of the regulatory region of DUO1 (ROD1) 5'-YAACYGY-3' in its promoter (PubMed:15694308, PubMed:27624837). First observed in the germ cell during or soon after engulfment by the vegetative cell, just after asymmetric division. In maturating pollen, accumulates in germ cells before mitosis and remains high in mature sperm cells. Expression persists during pollen development (PubMed:19300502). {ECO:0000269|PubMed:15694308, ECO:0000269|PubMed:19300502, ECO:0000269|PubMed:27624837}.
UniprotTISSUE SPECIFICITY: Confined to inflorescences, especially in stamens and pollen. {ECO:0000269|PubMed:15694308}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that acts as a positive regulator of male germline development by promoting both gametic cell specification and cell cycle progression (PubMed:15694308, PubMed:15618418, PubMed:19300502, PubMed:21285328). Binds to canonical MYB sites 5'-AACCGTC-3', 5'-AAACCGC-3' and 5'-AACCGT-3' in promoters to trigger the expression of male germline-specific or enriched genes (e.g. MGH3, GEX2 and GCS1), including those required for fertilization (PubMed:21285328, PubMed:19300502). Required for sperm cell specification leading to pollen maturation by activating a germline-specific regulon (PubMed:21285328, PubMed:15694308, PubMed:15618418, PubMed:19300502). Involved in pollen mitosis entry at G2-M transition via the regulation of CYCB1-1, DAZ1 and DAZ2 expression (PubMed:15618418, PubMed:19300502, PubMed:24876252). {ECO:0000269|PubMed:15618418, ECO:0000269|PubMed:15694308, ECO:0000269|PubMed:19300502, ECO:0000269|PubMed:21285328, ECO:0000269|PubMed:24876252}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009116728.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the microRNA 159 (miR159); the production of miR159 is stimulated by the anaphase promoting complex/cyclosome (APC/C) (PubMed:21441434). Activated by ARID1 in male germline cells via specific histone acetylation regulation (e.g. H3K9Ac) (PubMed:25057814). {ECO:0000269|PubMed:21441434, ECO:0000269|PubMed:25057814}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893190.0AC189319.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB036H01, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009116728.10.0PREDICTED: myb-related protein Myb4
SwissprotA0A178VEK71e-138DUO1_ARATH; Transcription factor DUO1
TrEMBLA0A078HUY50.0A0A078HUY5_BRANA; BnaA09g38510D protein
STRINGBra007536.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM65512842
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60460.11e-138MYB family protein
Publications ? help Back to Top
  1. Zheng B,He H,Zheng Y,Wu W,McCormick S
    An ARID domain-containing protein within nuclear bodies is required for sperm cell formation in Arabidopsis thaliana.
    PLoS Genet., 2014. 10(7): p. e1004421
    [PMID:25057814]
  2. Peters B, et al.
    A Conserved cis-Regulatory Module Determines Germline Fate through Activation of the Transcription Factor DUO1 Promoter.
    Plant Physiol., 2017. 173(1): p. 280-293
    [PMID:27624837]
  3. Zheng Z, et al.
    Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy.
    Plant Physiol., 2017. 174(3): p. 1764-1778
    [PMID:28515145]