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 PGSC0003DMP400015940
Common NameLOC102592914
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family MYB_related
Protein Properties Length: 450aa    MW: 50144.8 Da    PI: 9.8033
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400015940genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding262.2e-08130172346
                           SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
       Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                           +WT+eE ++l d++k++  + +  Ia +++ +Rt +++k+r+++
  PGSC0003DMP400015940 130 SWTKEETDQLFDLCKRFDLR-FVIIADRFPSNRTVEELKDRYYS 172
                           7*******************.*********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF162822.7E-31103177IPR032563DAMP1, SANT/Myb-like domain
SMARTSM007171.0E-9127176IPR001005SANT/Myb domain
SuperFamilySSF466894.57E-7127176IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.8E-6129174IPR009057Homeodomain-like
CDDcd116583.10E-19131173No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0000812Cellular ComponentSwr1 complex
GO:0035267Cellular ComponentNuA4 histone acetyltransferase complex
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 450 aa     Download sequence    Send to blast
MDAKDILGLP KNGPLMSQEK KSRPQKESQR KPDGISREVY ALTGGIAPLM PSIDINQLKR  60
RALSESEKIT WQWLPFTSSA RKDNLQLYHW VRVVNGVPPT GDYSFAKYNK SVDVIEYTDE  120
EYEKFLSNPS WTKEETDQLF DLCKRFDLRF VIIADRFPSN RTVEELKDRY YSVSRAITIA  180
RAPAPADVAG HPLVKEPYNA SQEVERKRAL SMVLSQTKHQ ERRDAEVLAE AKRISESRKA  240
AKAAEETELP DVSDAAPEGT EKAGIDVIST SPNAQLPSGI AAPPVSETAS TLASLRMLRV  300
YLRTYGLEQM VQAASSSAGL RTIKRVEQTL QDLGVNLKPK VPTKLVCAEH LELRKEILTL  360
LNLQKQVQYK EAEGSSYREG SYSETPGTPP KRAQRATDQD RTFIPDSTSF GGERAGKKDQ  420
KRKGPGRLSE VPSSPAQSKR PRKLKTSDG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3hm5_A2e-21102187493DNA methyltransferase 1-associated protein 1
4iej_A2e-21102187493DNA methyltransferase 1-associated protein 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtComponent of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histone H4 and H2A. {ECO:0000305|Ref.5}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400015940
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0135620.0BT013562.1 Lycopersicon esculentum clone 132299F, mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006349165.10.0PREDICTED: SWR1-complex protein 4
SwissprotQ8VZL60.0SWC4_ARATH; SWR1-complex protein 4
TrEMBLM1AI920.0M1AI92_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000233830.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA76261515
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47210.10.0MYB_related family protein
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Gómez-Zambrano Á, et al.
    Arabidopsis SWC4 Binds DNA and Recruits the SWR1 Complex to Modulate Histone H2A.Z Deposition at Key Regulatory Genes.
    Mol Plant, 2018. 11(6): p. 815-832
    [PMID:29604400]