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 Pahal.I01957.3
Organism
Panicum hallii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family MYB_related
Protein Properties Length: 209aa    MW: 23570.7 Da    PI: 5.2175
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.I01957.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding57.63e-18449147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     rg W + Ede+l+++v+++G+++W++Ia++++ gR++k+c++rw++ 
   Pahal.I01957.3  4 RGHWRPSEDEKLKELVALYGPHNWNAIAEKLQ-GRSGKSCRLRWFNQ 49
                     899*****************************.***********996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129425.97154IPR017930Myb domain
SMARTSM007171.5E-15352IPR001005SANT/Myb domain
PfamPF002496.4E-18449IPR001005SANT/Myb domain
SuperFamilySSF466892.37E-20577IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.606.7E-27568IPR009057Homeodomain-like
CDDcd001675.35E-14748No hitNo description
SMARTSM007171755188IPR001005SANT/Myb domain
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: 209 aa     Download sequence    Send to blast
MCTRGHWRPS EDEKLKELVA LYGPHNWNAI AEKLQGRSGK SCRLRWFNQL DPRINRSPFS  60
EEEEELLLAS HRVHGNRERM RMSNRRGAGA PGAATGGAAE DENNPRNAKK PRTDSSGMAS  120
LLDKYRREFA VPFAINNDSN KEDYCSTTNE EDTNKSVEFY DFLQVNANSS DTKCGSSIEE  180
QEENRDDQAE GQVQFIDFLE VGAASHRQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-18277580B-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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHF6794181e-107HF679418.1 Saccharum hybrid cultivar Co 86032 mRNA for ScMYB12 protein.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025795462.11e-130transcription factor MYB52-like isoform X2
SwissprotQ6R0C46e-48MYB52_ARATH; Transcription factor MYB52
TrEMBLA0A2S3IIL81e-154A0A2S3IIL8_9POAL; Uncharacterized protein
STRINGPavir.J14418.1.p1e-125(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.12e-44myb 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]