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_009138290.1
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 B3
Protein Properties Length: 186aa    MW: 20560.9 Da    PI: 4.4927
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009138290.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B363.24.1e-201096195
                    EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
              B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95
                    ffkv+   ++++s+ + +p +++  h+++   +kt +l+ + g  W+v++  ++k+++++++kGW +Fv +n L++gDf++F ++g + fe   +
  XP_009138290.1 10 FFKVF--ISHHSSDSMLIPISYT--HELPRILPKTAILQGTGGCFWKVEM--KRKRDEVYFGKGWTKFVTDNSLNDGDFLTFVYNGANVFEV--S 96
                    89999..667777779******8..666677999****************..********************************99888844..3 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.9E-224101IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-244103IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.7758101IPR003340B3 DNA binding domain
CDDcd100176.32E-20898No hitNo description
PfamPF023625.4E-171094IPR003340B3 DNA binding domain
SMARTSM010192.1E-1710101IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 186 aa     Download sequence    Send to blast
MAEDDTPPRF FKVFISHHSS DSMLIPISYT HELPRILPKT AILQGTGGCF WKVEMKRKRD  60
EVYFGKGWTK FVTDNSLNDG DFLTFVYNGA NVFEVSIYGL GGCKEMRAVT EVEEVKEDSV  120
VSLSSTDSDT SSESVVANTI SKNKGKSQVV EDEDESEEAE AETCSESTVA KTTTGSRNKG  180
LTLFIN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A2e-17910310104At1g16640
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009138290.1
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_009138285.11e-136PREDICTED: B3 domain-containing protein At4g34400-like
RefseqXP_009138290.11e-136PREDICTED: B3 domain-containing protein At4g34400-like
SwissprotQ9SZ053e-51Y3440_ARATH; B3 domain-containing protein At4g34400
TrEMBLM4DMB61e-134M4DMB6_BRARP; Uncharacterized protein
STRINGBra017648.1-P1e-135(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
AT3G06220.13e-44B3 family protein
Publications ? help Back to Top
  1. 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]
  2. Richter R, et al.
    Floral regulators FLC and SOC1 directly regulate expression of the B3-type transcription factor TARGET OF FLC AND SVP 1 at the Arabidopsis shoot apex via antagonistic chromatin modifications.
    PLoS Genet., 2019. 15(4): p. e1008065
    [PMID:30946745]