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 XP_009118835.1
Organism
Brassica rapa
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: 469aa    MW: 52571.1 Da    PI: 9.5816
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009118835.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding30.86.8e-10158200346
                      SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                       WT+eE ++l ++++++  + +++Ia ++++ Rtl+++k+r+++
   XP_009118835.1 158 VWTKEETDQLFELCERFDLR-FTLIADRFPLSRTLEELKDRYYT 200
                      6*******************.*********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF162822.1E-29131205IPR032563DAMP1, SANT/Myb-like domain
SMARTSM007177.1E-10155204IPR001005SANT/Myb domain
SuperFamilySSF466894.08E-7155207IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.0E-7158203IPR009057Homeodomain-like
CDDcd116583.40E-17159201No hitNo description
PfamPF054992.9E-7344411IPR008468DNA 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 469 aa     Download sequence    Send to blast
MGGTDAKDIL GLPKTPLPLS HEKKARPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVTH  60
LKRPPPPDEK VAWQWLPIKS SARKDDLQLY HWVISSLPIC CESLSISFFL MPFLLSSQVR  120
VVNGVPPTAD YSFAKYNKSV DISKYTDDEY ENHLTDPVWT KEETDQLFEL CERFDLRFTL  180
IADRFPLSRT LEELKDRYYT VTRALLRARA QSPADLANHP LMKEPYDMTR DRERKRALSM  240
VLSQSRHQEK KDAEILAEAK RITEMRLAAR RAAGPDVSGN ENIALDKADG GPASPSSNSQ  300
LPATAVAPST LTMADYASTL ASLRMLHVYL RTYGLEQMVQ AASSAVGLRT IKRVEQTLQD  360
LGVNLKPKVP TKTVCDEHLE LRKEILTLLN LQKQLQYKES EGSSQREGSY AAMPDTPKDR  420
VFASEPFSFG GISAEKPIKK EPKRKGPGRQ ADTPSPAHKR PRKLKASDL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3hm5_A4e-19130215493DNA methyltransferase 1-associated protein 1
4iej_A4e-19130215493DNA methyltransferase 1-associated protein 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.152180.0bud| flower| leaf
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
PlantRegMapXP_009118835.1
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_009118835.10.0PREDICTED: SWR1-complex protein 4-like isoform X1
SwissprotQ8VZL60.0SWC4_ARATH; SWR1-complex protein 4
TrEMBLA0A397ZY080.0A0A397ZY08_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]