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 GSBRNA2T00062879001
Common NameGSBRNA2T00062879001
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 B3
Protein Properties Length: 281aa    MW: 31692.1 Da    PI: 4.4398
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00062879001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B362.47.2e-2013103199
                          EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                          ffkv+   + ++s  + +p +f+e+ + +   ++t +l+   g +W+v +  +k ++  ++t+GW++F+++++Lk+g+f++F +dg+++f
  GSBRNA2T00062879001  13 FFKVF--LSETASESMAIPMSFIEHLEDP--LPQTAKLQGIGGGVWTVSF--KKIRDCAYFTSGWSKFAEDHELKDGEFLTFVYDGSHTF 96 
                          88999..666777779*******666655..889****************..99998899************************998888 PP

                          ..EEEEE-S CS
                   B3  91 elvvkvfrk 99 
                             v+vf +
  GSBRNA2T00062879001  97 --EVSVFGR 103
                          ..8888766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019369.22E-267106IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-239106IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086314.01511104IPR003340B3 DNA binding domain
CDDcd100172.13E-2011101No hitNo description
PfamPF023624.0E-1713102IPR003340B3 DNA binding domain
SMARTSM010191.2E-2413104IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.9E-6183262IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.55E-9183262IPR015300DNA-binding pseudobarrel domain
SMARTSM010190.25186277IPR003340B3 DNA binding domain
PROSITE profilePS508636.47240279IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 281 aa     Download sequence    Send to blast
MSESEEDVDL PRFFKVFLSE TASESMAIPM SFIEHLEDPL PQTAKLQGIG GGVWTVSFKK  60
IRDCAYFTSG WSKFAEDHEL KDGEFLTFVY DGSHTFEVSV FGRSGCKEIR AEVETVELSD  120
ANSDKEEEDS SVVADSNEEE EEGDDDSSFI AGEDDEVSQS LSHVDSDDTV SNAEGFSNLE  180
VESNPCFTTT LKNRIYELLI PANVVKEHGL TFCDRIKYID GEGIMHGAKG KWSDDRICFK  240
GWDRICRRNR LKERDTVHCE MFHIRNKVHT IKIRVTRGRG *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A2e-191210610104At1g16640
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00062879001
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_009103858.10.0PREDICTED: B3 domain-containing protein REM20-like
SwissprotQ8LAV51e-100REM20_ARATH; B3 domain-containing protein REM20
TrEMBLA0A078JIK20.0A0A078JIK2_BRANA; BnaAnng24200D protein
STRINGBra003130.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15612380
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G53310.11e-98B3 family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  3. 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]