PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00036179001
Common NameGSBRNA2T00036179001, LOC106396141
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB_related
Protein Properties Length: 434aa    MW: 49054.9 Da    PI: 9.816
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00036179001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding28.43.9e-09132174346
                          SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                           WT+eE ++l ++++++  + ++ Ia ++++ Rt +++k+r+++
  GSBRNA2T00036179001 132 VWTKEETDQLFELCERFDLR-FTVIADRFPLSRTVEELKDRYYS 174
                          6*******************.*********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF162822.3E-30105179IPR032563DAMP1, SANT/Myb-like domain
SuperFamilySSF466892.53E-7129182IPR009057Homeodomain-like
SMARTSM007179.4E-10129178IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.7E-7132177IPR009057Homeodomain-like
CDDcd116582.35E-18133175No hitNo description
PfamPF054998.0E-7310379IPR008468DNA methyltransferase 1-associated 1
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: 434 aa     Download sequence    Send to blast
MGGTDAKDIL GLPKTPLSLT QEKKSRPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVTH  60
LKRPPPHDEK VAWQWLPVKS SARKDDLQLY HWVRVVNDVP PTGDYSFAKY NKSVDVLKYT  120
DDEYENHLTD PVWTKEETDQ LFELCERFDL RFTVIADRFP LSRTVEELKD RYYSVTRALL  180
RARAQSPAEL ANHPLIKEPY DMTRDRERKR ALSMVLSQSR HQEKKDAEIL AEAKRITEMR  240
LAARRAAEPD VPANENIGSV SPSSNSQLPA TAVAPSTLTM ADYASTLASL RMLHVYLRTY  300
GLEQMVQAAS SAVGLRTIKR VEQTLQDLGV NLKPKVPTKT VCDEHLELRK EILTLLNLQK  360
QLQYKESEGS SHREGTYAAM PDTPKDRVFA SEPFSFGAER PIKKEPKRKG PGRRSDTPSP  420
AHKRPRKLKA SDL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3hm5_A2e-19104184488DNA methyltransferase 1-associated protein 1
4iej_A2e-19104184488DNA methyltransferase 1-associated protein 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.215980.0vegetative meristem
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
PlantRegMapGSBRNA2T00036179001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3530190.0AK353019.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-19-J15.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013691915.10.0SWR1-complex protein 4 isoform X2
SwissprotQ8VZL60.0SWC4_ARATH; SWR1-complex protein 4
TrEMBLA0A078JD770.0A0A078JD77_BRANA; BnaC04g52380D protein
STRINGBo00954s060.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM85432435
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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  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]