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 evm_27.model.AmTr_v1.0_scaffold00024.83
Common NameAMTR_s00024p00137930, LOC18439271
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family MYB
Protein Properties Length: 217aa    MW: 25285.5 Da    PI: 9.5736
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00024.83genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding55.81.1e-17449147
                                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
                          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                                             rg W + Ed++l+++v ++G+++W++Ia++++ gR++k+c++rw++ 
  evm_27.model.AmTr_v1.0_scaffold00024.83  4 RGHWRPSEDDKLKELVDKYGPHNWNAIAEKLQ-GRSGKSCRLRWFNQ 49
                                             899*****************************.***********996 PP
2Myb_DNA-binding55.11.7e-175699146
                                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
                          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                                             r ++T+eE+e+l+  ++++G++ W+ Iar ++ gRt++ +k++w+ 
  evm_27.model.AmTr_v1.0_scaffold00024.83 56 RSPFTEEEEERLLASHRLHGNR-WAIIARLFP-GRTDNAVKNHWHV 99
                                             789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129419.729150IPR017930Myb domain
SMARTSM007175.7E-15352IPR001005SANT/Myb domain
SuperFamilySSF466891.95E-29497IPR009057Homeodomain-like
PfamPF002491.2E-17449IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.3E-27557IPR009057Homeodomain-like
CDDcd001673.08E-13748No hitNo description
PROSITE profilePS5129426.42751105IPR017930Myb domain
SMARTSM007173.3E-1555103IPR001005SANT/Myb domain
PfamPF002491.8E-145698IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.6E-2158104IPR009057Homeodomain-like
CDDcd001673.21E-115898No hitNo description
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: 217 aa     Download sequence    Send to blast
MCTRGHWRPS EDDKLKELVD KYGPHNWNAI AEKLQGRSGK SCRLRWFNQL DPRINRSPFT  60
EEEEERLLAS HRLHGNRWAI IARLFPGRTD NAVKNHWHVI MARKCRERSR FLAKKAAQNL  120
VKEARQPEIM GRERENFNGL LGNYYRRYGG PFIHTPHPHN YTQLYPNKET PIEFYNFLSV  180
KTDNNGVETK SEEEDLDSCT TSSVPFVDFL SVGSVK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C1e-3311051105C-Myb DNA-Binding Domain
1msf_C1e-3311051105C-Myb DNA-Binding Domain
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006849503.11e-163transcription factor MYB52
SwissprotQ6R0C42e-77MYB52_ARATH; Transcription factor MYB52
TrEMBLW1PTB11e-162W1PTB1_AMBTC; Uncharacterized protein
STRINGERN110841e-162(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.13e-79myb 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. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  4. Shi D, et al.
    MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage.
    Plant Physiol., 2018. 176(4): p. 2737-2749
    [PMID:29440562]