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 Neem_3239_f_4
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family MYB
Protein Properties Length: 253aa    MW: 29404.7 Da    PI: 8.5053
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_3239_f_4genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding56.85e-18449147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     rg W + Ede+l ++v+++G+++W++Ia++++ gR++k+c++rw++ 
    Neem_3239_f_4  4 RGHWRPAEDEKLRELVERYGPHNWNAIAEKLQ-GRSGKSCRLRWFNQ 49
                     899*****************************.***********996 PP
2Myb_DNA-binding53.84.5e-175699146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                     r ++T+eE+++l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
    Neem_3239_f_4 56 RSPFTEEEEDRLLASHRIHGNR-WAVIARLFP-GRTDNAVKNHWHV 99
                     789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129426.07154IPR017930Myb domain
SMARTSM007172.9E-15352IPR001005SANT/Myb domain
SuperFamilySSF466891.05E-29497IPR009057Homeodomain-like
PfamPF002499.2E-18449IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.4E-27557IPR009057Homeodomain-like
CDDcd001676.19E-14748No hitNo description
SMARTSM007175.3E-1555103IPR001005SANT/Myb domain
PROSITE profilePS5129420.03655105IPR017930Myb domain
PfamPF002493.6E-145698IPR001005SANT/Myb domain
CDDcd001672.31E-115898No hitNo description
Gene3DG3DSA:1.10.10.601.4E-2058104IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009737Biological Processresponse to abscisic acid
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 253 aa     Download sequence    Send to blast
MCTRGHWRPA EDEKLRELVE RYGPHNWNAI AEKLQGRSGK SCRLRWFNQL DPRINRSPFT  60
EEEEDRLLAS HRIHGNRWAV IARLFPGRTD NAVKNHWHVI MARRCRERSR LYAKRAVQSI  120
VINDQITITP PKADALLLQN NGCSTTDRRH HQAKHLASFV GKSDYTFPQN HQQQFFKQFC  180
AENTNHLVAS NQDKNHPVEF YDFLQVNTDS TKSEVIDNAR RDDEEVDQEA REQQQGTAGV  240
QFIDFLSVGN SSS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-3321055108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:23781226}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00145DAPTransfer from AT1G17950Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19674407, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:22197883}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006441364.11e-131transcription factor MYB54
RefseqXP_006478100.11e-131transcription factor MYB54
SwissprotQ6R0C45e-89MYB52_ARATH; Transcription factor MYB52
TrEMBLA0A067DID91e-129A0A067DID9_CITSI; Uncharacterized protein
TrEMBLV4VNT61e-129V4VNT6_9ROSI; Uncharacterized protein
STRINGXP_006478100.11e-130(Citrus sinensis)
STRINGXP_006441364.11e-130(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM28182769
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.12e-91myb domain protein 52
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  3. Shi D, et al.
    MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage.
    Plant Physiol., 2018. 176(4): p. 2737-2749
    [PMID:29440562]