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 RrC6596_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: 302aa    MW: 34303.4 Da    PI: 7.1984
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC6596_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding40.75.4e-131156146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                     +g+W  eEde l++ v+++G+++W++I ++  + Rt+k+c++rw +
       RrC6596_p1 11 KGPWKVEEDEVLINHVNRYGPRDWSSIRSKGLLQRTGKSCRLRWVN 56
                     79*************************8887799**********87 PP
2Myb_DNA-binding42.21.9e-1365106144
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrw 44 
                      r +++++E+   +++ +++G++ W++Ia +++ gRt++++k++w
       RrC6596_p1  65 RCKFSADEERTVIELQAEFGNK-WARIATYLP-GRTDNDVKNFW 106
                      679*******************.*********.*********** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.607.9E-21559IPR009057Homeodomain-like
PROSITE profilePS5129415.481658IPR017930Myb domain
SuperFamilySSF466892.19E-279106IPR009057Homeodomain-like
SMARTSM007171.8E-101060IPR001005SANT/Myb domain
PfamPF002494.0E-111156IPR001005SANT/Myb domain
CDDcd001674.32E-101358No hitNo description
PROSITE profilePS5129420.68359114IPR017930Myb domain
Gene3DG3DSA:1.10.10.607.9E-1860112IPR009057Homeodomain-like
SMARTSM007178.5E-1364112IPR001005SANT/Myb domain
PfamPF002491.7E-1265106IPR001005SANT/Myb domain
CDDcd001679.79E-1067106No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048235Biological Processpollen sperm cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 302 aa     Download sequence    Send to blast
MEAAKKEEIK KGPWKVEEDE VLINHVNRYG PRDWSSIRSK GLLQRTGKSC RLRWVNKLRP  60
NLKNRCKFSA DEERTVIELQ AEFGNKWARI ATYLPGRTDN DVKNFWSSRI KRLARILHNS  120
SDASSSSNPK PSSHRSKGKN VKPIQSLYAT QFQRFGLVEE EITAPSSSSK ILPYSSSDQN  180
DHEVLRLPEL GIKLEHKPLA FGTDLVLAEK ATPLMSEFHI ANQQAVNSNS FSSESIELLA  240
TLDNPYYYDI LGPADSSEPF FEPSPTPRRC SRHVSKDDEA DVFLDDFPAD MFDQVDYSNP  300
SP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C1e-27811224126MYB TRANSFORMING PROTEIN
Search in ModeBase
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}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006402579.21e-159transcription factor DUO1
SwissprotA0A178VEK71e-150DUO1_ARATH; Transcription factor DUO1
TrEMBLV4LNL01e-158V4LNL0_EUTSA; Uncharacterized protein
STRINGXP_006402579.11e-159(Eutrema salsugineum)
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-130MYB 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]