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 Araha.18459s0003.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MYB
Protein Properties Length: 184aa    MW: 21648.3 Da    PI: 8.6753
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.18459s0003.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding574.3e-18550147
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                          rg W + Ede+l ++v+q+G+++W++Ia+++  gR++k+c++rw++ 
  Araha.18459s0003.1.p  5 RGHWRPAEDEKLRELVEQFGPHNWNAIAQKLS-GRSGKSCRLRWFNQ 50
                          899*****************************.***********996 PP
2Myb_DNA-binding56.27.8e-1857100146
                           TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
       Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                           r+++T+eE+e+l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
  Araha.18459s0003.1.p  57 RNPFTEEEEERLLASHRIHGNR-WSVIARFFP-GRTDNAVKNHWHV 100
                           789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129425.039155IPR017930Myb domain
SMARTSM007179.3E-15453IPR001005SANT/Myb domain
PfamPF002494.5E-17550IPR001005SANT/Myb domain
SuperFamilySSF466891.95E-30598IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.5E-27658IPR009057Homeodomain-like
CDDcd001671.26E-12849No hitNo description
PROSITE profilePS5129418.71356106IPR017930Myb domain
SMARTSM007171.3E-1556104IPR001005SANT/Myb domain
PfamPF002491.1E-145799IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.0E-2159104IPR009057Homeodomain-like
CDDcd001672.73E-115999No 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: 184 aa     Download sequence    Send to blast
MMCSRGHWRP AEDEKLRELV EQFGPHNWNA IAQKLSGRSG KSCRLRWFNQ LDPRINRNPF  60
TEEEEERLLA SHRIHGNRWS VIARFFPGRT DNAVKNHWHV IMARRGRERF WTWIIWSGAI  120
DQTKRPMEFY NFLQVNTDSK KPVVIDNSRK DEEENVDQNN SNENCVPFFD FLSVGNSTSQ  180
GLC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-3151057107B-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.18459s0003.1.p
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0866721e-170AY086672.1 Arabidopsis thaliana clone 267121 mRNA, complete sequence.
GenBankAY5195541e-170AY519554.1 Arabidopsis thaliana MYB transcription factor (At1g17950) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025015096.17e-91transcription factor MYB52
SwissprotQ6R0C42e-79MYB52_ARATH; Transcription factor MYB52
TrEMBLB9SWD81e-91B9SWD8_RICCO; R2r3-myb transcription factor, putative
STRINGXP_002530307.12e-92(Ricinus communis)
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
AT1G17950.16e-82myb 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]