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 GSBRNA2T00142012001
Common NameGSBRNA2T00142012001
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 CPP
Protein Properties Length: 1301aa    MW: 142521 Da    PI: 7.2546
Description CPP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00142012001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCR39.51.1e-12349389240
                  TCR   2 ekkgCnCkkskClkkYCeCfaagkkCsee..CkCedCkNke 40 
                          ++k+C+CkkskCl++ CeCf+ g++C+ e  C+C+dC+Nk 
  GSBRNA2T00142012001 349 SRKRCKCKKSKCLQLLCECFSTGVYCTTEppCSCTDCFNKP 389
                          5799***********************9889********96 PP
2TCR32.71.5e-10440476239
                  TCR   2 ekkgCnCkkskClkkYCeCfaagkkCseeCkCedCkNk 39 
                          +k gCnCkks+  +kYC+Cf+ g+ C+ +CkCe+C+N+
  GSBRNA2T00142012001 440 RKSGCNCKKSNS-QKYCQCFKGGVGCTVNCKCEGCENR 476
                          689*******95.67**********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS508969.006840IPR006594LIS1 homology motif
SMARTSM006670.012840IPR006594LIS1 homology motif
PROSITE profilePS508968.32476108IPR006594LIS1 homology motif
SMARTSM006670.3676108IPR006594LIS1 homology motif
PfamPF085134.2E-580103IPR006594LIS1 homology motif
SMARTSM011142.5E-11348391IPR033467Tesmin/TSO1-like CXC domain
PROSITE profilePS5163428.839349478IPR005172CRC domain
PfamPF036384.8E-9351388IPR005172CRC domain
SMARTSM011145.6E-7439479IPR033467Tesmin/TSO1-like CXC domain
PfamPF036381.1E-6442476IPR005172CRC domain
PROSITE profilePS508969.822526558IPR006594LIS1 homology motif
SMARTSM006672.0E-4526558IPR006594LIS1 homology motif
PfamPF085132.0E-7528553IPR006594LIS1 homology motif
Gene3DG3DSA:2.130.10.102.3E-6610021300IPR015943WD40/YVTN repeat-like-containing domain
SuperFamilySSF509781.01E-6110121300IPR017986WD40-repeat-containing domain
SMARTSM003204.4E-610131052IPR001680WD40 repeat
CDDcd002004.26E-6710161300No hitNo description
PROSITE profilePS5008210.67610201055IPR001680WD40 repeat
PROSITE profilePS5029437.30710201300IPR017986WD40-repeat-containing domain
PfamPF004009.1E-410271052IPR001680WD40 repeat
PROSITE patternPS00678010391053IPR019775WD40 repeat, conserved site
PRINTSPR003201.7E-510391053IPR020472G-protein beta WD-40 repeat
SMARTSM003201.1E-610531094IPR001680WD40 repeat
PROSITE profilePS5008213.34910621096IPR001680WD40 repeat
PfamPF004003.7E-610651094IPR001680WD40 repeat
PROSITE patternPS00678010811095IPR019775WD40 repeat, conserved site
PRINTSPR003201.7E-510811095IPR020472G-protein beta WD-40 repeat
SMARTSM003208.1E-710981138IPR001680WD40 repeat
PfamPF004000.02911011138IPR001680WD40 repeat
PROSITE profilePS5008211.07711051147IPR001680WD40 repeat
SMARTSM0032039011411176IPR001680WD40 repeat
SMARTSM003201.6E-711791217IPR001680WD40 repeat
PfamPF004004.9E-511831217IPR001680WD40 repeat
PROSITE profilePS5008211.57811861226IPR001680WD40 repeat
SMARTSM003200.5812201259IPR001680WD40 repeat
SMARTSM003202.6E-412611300IPR001680WD40 repeat
PfamPF004000.03612671300IPR001680WD40 repeat
PROSITE profilePS5008212.34612681300IPR001680WD40 repeat
PRINTSPR003201.7E-512871300IPR020472G-protein beta WD-40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001666Biological Processresponse to hypoxia
GO:0006974Biological Processcellular response to DNA damage stimulus
GO:0006979Biological Processresponse to oxidative stress
GO:0009414Biological Processresponse to water deprivation
GO:0009611Biological Processresponse to wounding
GO:0009617Biological Processresponse to bacterium
GO:0009620Biological Processresponse to fungus
GO:0009624Biological Processresponse to nematode
GO:0009733Biological Processresponse to auxin
GO:0009793Biological Processembryo development ending in seed dormancy
GO:0009827Biological Processplant-type cell wall modification
GO:0009909Biological Processregulation of flower development
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010073Biological Processmeristem maintenance
GO:0010272Biological Processresponse to silver ion
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045995Biological Processregulation of embryonic development
GO:0046898Biological Processresponse to cycloheximide
GO:0048358Biological Processmucilage pectin biosynthetic process
GO:0048359Biological Processmucilage metabolic process involved in seed coat development
GO:0071217Biological Processcellular response to external biotic stimulus
GO:0080001Biological Processmucilage extrusion from seed coat
GO:1901001Biological Processnegative regulation of response to salt stress
GO:1902074Biological Processresponse to salt
GO:1902183Biological Processregulation of shoot apical meristem development
GO:2000024Biological Processregulation of leaf development
GO:0005634Cellular Componentnucleus
GO:0003713Molecular Functiontranscription coactivator activity
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 1301 aa     Download sequence    Send to blast
MAQSNWESDK MLDAYIYDHL VKKKLHNIAK SFVTEGKVSP DPVAIDAPGG FLFEWWFVFW  60
EMFYARTKEK HDESVVEYGL NVYIFDYLVK KKLHYTAKLF MTEVKVSPDN VAIDDPRGFL  120
SEWWSLFWDV YIAKTNEKHS ESTAEAQQGK AKEQMKQPNP INTETSQTHM DAGTIHHGQM  180
VQGNNQGGVS AALQSRTQQT PLINMPPVQH SSSQQQDPLL SQQSQQNNST GSGNMVGSSN  240
SQLSTPSTHT PVEGDAMTGN MPKGPMMYGS DAIGGLASSA NQLWQQGKAE EEQIQMKQLN  300
PVNTETSGTN NHGEMVQRND QGGDVSAAIL KQLKSQTQQT PLEAGEGESR KRCKCKKSKC  360
LQLLCECFST GVYCTTEPPC SCTDCFNKPI HEDTVLAPAR KKYESRNPFG FAPRVIRSSH  420
SVMKTREEED ASKSPASARR KSGCNCKKSN SQKYCQCFKG GVGCTVNCKC EGCENRFGVK  480
ASETPWQCLI SSFEDRIRVS KHTDSFGLTQ VTRSLAGAMA QSNWEADKML DVYIYDYLVK  540
KKLHNTAKSF MTEGKVSPDP VAIDAPGGFL FEWWSVFWDI FIARTNEKHS ESAAAYIEAQ  600
QGKAKEQQMQ LQQLQMMRQA QMRRDPSLGG PMNAIVSDGM VGQSNNASAM AAKMYEERMK  660
QPNPMNAETS QPHMDPRMAL LKSGTSHHGQ MVQGNHQGGV SAALQQLQSR TQQTPEIKSE  720
VNLGASPRQL PVDPSTVYGQ GILQSKPGMG SAGLNPGVGV LPLKGWPLTG IDNMRQGLGP  780
QVQKAFLQNQ GQFQLSPQQQ QQQQIMAQVQ GQGNMTNSSV YGDMDTRRFS GLPRGNLNSK  840
DGQQNANDGS IGSPMLSNSS KLINMPQVQQ SSSQQQDPLL SQQSQQNNRK RKGPSSSGPA  900
NSTGTGNTVG PSNSQPSTPS THTPVEGVAM TGNMQHVNNM PKGPMMYGSD AIGGLASSAN  960
QLLQDDMEPF GDVGALEDNV ESFLSQDDGD GGSLFGTLKR NPSEHTETSK VFSFNEVGSI  1020
RRSASKVICC NFSSDGKLLA SAGHDKKVFI WNMETLHTEI PPEEHGHIIT DVRFQPNSTQ  1080
LATSSFDKTI KIWDVSKPGY LVRTISGHNA PVMSLDFHPK KTDLFCSCDT NNEIRFWSIN  1140
AANCLRAQGA STQVRFQPKL GQMLAAASEN IVSIFDVEQY RGVHSFKGHS SSVHSICWNP  1200
TGELVASLSE DSVKVWSVGS GECIHELSSS GNKFHSCVYH PTYPNLLVIG GYQSLELWDT  1260
GENKCMTIAA HECVISALAQ SSSTGMMASA SHDKSVKIWK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2ymu_A9e-271024129913577WD-40 REPEAT PROTEIN
2ymu_B9e-271024129913577WD-40 REPEAT PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Accumulates throughout young developing leaves, before being confined to the vasculature of older leaves (PubMed:19837869). Expressed during seed coat development, reaching peak expression late in differentiation at 10 days post anthesis (DPA) (PubMed:21518777). {ECO:0000269|PubMed:19837869, ECO:0000269|PubMed:21518777}.
UniprotTISSUE SPECIFICITY: Expressed in roots, stems, leaves, seedlings, apex, flowers, siliques, flower organs and seeds (including seed coat). {ECO:0000269|PubMed:18390806, ECO:0000269|PubMed:21518777}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription repressor subunit of the SEU-SLK1 and SEU-SLK2 transcriptional corepressor of abiotic stress (e.g. salt and osmotic stress) response genes, by means of an epigenetic process involving histone modification (e.g. H3K9 and H3K14 acetylation), probably by recruiting HDAC, to facilitate the condensation of chromatin thus preventing transcription at the target genes (PubMed:24564815). Can also act as a transcription activator (PubMed:21518777). Implicated in embryo and floral development (PubMed:18390806). Involved in post-synthesis cell wall modifications necessary for mucilage extrusion from seeds upon imbibition, probably by promoting the expression of genes required for mucilage maturation (e.g. MUM2) (PubMed:11706181, PubMed:21362134, PubMed:21402796, PubMed:21518777). Regulates the maintenance on leaf polarity and meristem activity as well as the initiation of embryonic shoot apical meristem (SAM) development (PubMed:19837869). {ECO:0000269|PubMed:11706181, ECO:0000269|PubMed:18390806, ECO:0000269|PubMed:19837869, ECO:0000269|PubMed:21362134, ECO:0000269|PubMed:21402796, ECO:0000269|PubMed:21518777, ECO:0000269|PubMed:24564815}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00142012001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by exposures to biotic stress (e.g. nematode and Botrytis cinerea) and abiotic stress (e.g. salt, genotoxic, wounding, drought and oxidative stress). Repressed by exposures to biotic stress (e.g. Agrobacterium tumefaciens) and abiotic stress (e.g. hypoxia, cycloheximide, 2,4-dichlorophenoxyacetic acid, AgNO(3) and aminoethoxyvinylglycine). {ECO:0000269|PubMed:18390806}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013734179.10.0transcriptional corepressor LEUNIG_HOMOLOG isoform X1
RefseqXP_013734180.10.0transcriptional corepressor LEUNIG_HOMOLOG isoform X1
RefseqXP_022571644.10.0transcriptional corepressor LEUNIG_HOMOLOG isoform X1
SwissprotO488470.0LUH_ARATH; Transcriptional corepressor LEUNIG_HOMOLOG
TrEMBLA0A3P6AXK50.0A0A3P6AXK5_BRAOL; Uncharacterized protein
STRINGBo3g026760.10.0(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G14770.12e-37TESMIN/TSO1-like CXC 2
Publications ? help Back to Top
  1. Haas BJ, et al.
    Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies.
    Nucleic Acids Res., 2003. 31(19): p. 5654-66
    [PMID:14500829]
  2. Hollender CA,Liu Z
    Bimolecular fluorescence complementation (BiFC) assay for protein-protein interaction in onion cells using the helios gene gun.
    J Vis Exp, 2010.
    [PMID:20567209]
  3. Bui M,Lim N,Sijacic P,Liu Z
    LEUNIG_HOMOLOG and LEUNIG regulate seed mucilage extrusion in Arabidopsis.
    J Integr Plant Biol, 2011. 53(5): p. 399-408
    [PMID:21362134]
  4. Walker M, et al.
    The transcriptional regulator LEUNIG_HOMOLOG regulates mucilage release from the Arabidopsis testa.
    Plant Physiol., 2011. 156(1): p. 46-60
    [PMID:21402796]
  5. Huang J, et al.
    The Arabidopsis transcription factor LUH/MUM1 is required for extrusion of seed coat mucilage.
    Plant Physiol., 2011. 156(2): p. 491-502
    [PMID:21518777]
  6. Shrestha B,Guragain B,Sridhar VV
    Involvement of co-repressor LUH and the adapter proteins SLK1 and SLK2 in the regulation of abiotic stress response genes in Arabidopsis.
    BMC Plant Biol., 2014. 14: p. 54
    [PMID:24564815]
  7. 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]
  8. Ranocha P,Francoz E,Burlat V,Dunand C
    Expression of PRX36, PMEI6 and SBT1.7 is controlled by complex transcription factor regulatory networks for proper seed coat mucilage extrusion.
    Plant Signal Behav, 2014. 9(11): p. e977734
    [PMID:25531128]
  9. Geng X, et al.
    LEUNIG_HOMOLOG transcriptional co-repressor mediates aluminium sensitivity through PECTIN METHYLESTERASE46-modulated root cell wall pectin methylesterification in Arabidopsis.
    Plant J., 2017. 90(3): p. 491-504
    [PMID:28181322]