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 Rsa1.0_00064.1_g00044.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB_related
Protein Properties Length: 433aa    MW: 49075.8 Da    PI: 9.6717
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00064.1_g00044.1genomeRGDView 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+++
  Rsa1.0_00064.1_g00044.1 132 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
SuperFamilySSF466892.45E-7129182IPR009057Homeodomain-like
SMARTSM007179.4E-10129178IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.7E-7132177IPR009057Homeodomain-like
CDDcd116582.15E-18133175No hitNo description
PfamPF054991.1E-6310379IPR008468DNA 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: 433 aa     Download sequence    Send to blast
MGGTDAKDIL GLPKTPLSLT QEKKSRPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVTH  60
LKRRPPPDEK VAWQWLPVKS SARNDDLQLY HWVRVVNDVP PSADYSFAKY NKSVDVLKYT  120
DDEYENHLTD PVWTKEETDQ LFELCERFDL RFTVIADRFP LSRTVEELKD RYYSVTRALL  180
RATAQSPSEL ANHPLMKEPY DMTRDRERKR ALSMVLSQSR HQEKKDAEIL AEAKRITEMR  240
LAARRAAEPD VPANENIGSV SPSSNSQLPA TAVAPSTLTM ADYTSTLASL RMLHVYLRTY  300
GLEQMVQAAS SAVGLRTIKR VEQTLQDLGV NLKPKVPTKT VCDEHLELRK EILTLLNLQK  360
QLQYKESEGS SHREGTYAAM PDTPKDRVFA SEPFSFGGER PIKKEQKRKG PGRQSDTPSP  420
AHKRPRKMKA SDL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3hm5_A2e-18104184488DNA methyltransferase 1-associated protein 1
4iej_A2e-18104184488DNA 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
PlantRegMapRsa1.0_00064.1_g00044.1
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_018434288.10.0PREDICTED: SWR1-complex protein 4
SwissprotQ8VZL60.0SWC4_ARATH; SWR1-complex protein 4
TrEMBLA0A397ZCK10.0A0A397ZCK1_BRACM; Uncharacterized 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. 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]