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_009138341.1
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: 276aa    MW: 30710.2 Da    PI: 4.5937
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009138341.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B362.18.8e-2014104199
                     EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                     ffkv++p+ +++s  + +pk+f ++ + +   ++t +l+   g +W+v +  +k +g  ++t+GW++F+++++Lk g+f++F +dg+++f   v+
  XP_009138341.1  14 FFKVFLPETASES--MAIPKSFNAHLQDP--LPQTAKLQGIGGGVWTVSF--KKIRGVAYFTSGWSKFAEDHELKHGEFLTFVYDGSHTF--EVS 100
                     8999966666665..8******8555644..899****************..********************************998888..888 PP

                     EE-S CS
              B3  96 vfrk 99 
                     vf +
  XP_009138341.1 101 VFGR 104
                     8766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.0E-2410107IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.55E-2510107IPR015300DNA-binding pseudobarrel domain
CDDcd100178.71E-2112102No hitNo description
PROSITE profilePS5086313.67612105IPR003340B3 DNA binding domain
PfamPF023626.8E-1714103IPR003340B3 DNA binding domain
SMARTSM010192.8E-2314105IPR003340B3 DNA binding domain
SuperFamilySSF1019361.73E-6181260IPR015300DNA-binding pseudobarrel domain
SMARTSM010190.54185273IPR003340B3 DNA binding domain
PROSITE profilePS508636.033238276IPR003340B3 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: 276 aa     Download sequence    Send to blast
MSESDEDVAD LPRFFKVFLP ETASESMAIP KSFNAHLQDP LPQTAKLQGI GGGVWTVSFK  60
KIRGVAYFTS GWSKFAEDHE LKHGEFLTFV YDGSHTFEVS VFGRSECKEI RAVVETVNLS  120
DANSDEEEEE DSSVVAADSN EGDDPSFHAG EDDEVSQSIN PVDSDDTVSV AEGFPNLEVE  180
SNPCFTTTLK KRIYDVLIPA AVVKEHGLTF CDRIKYIDGE GILDGAILNC SYYGISFKGW  240
GRICRRNRLK ENDTVHCEML HIRKKVHSIK ITITRG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A3e-171310710104At1g16640
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009138341.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892220.0AC189222.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB010M19, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138341.10.0PREDICTED: B3 domain-containing protein REM20-like isoform X2
SwissprotQ8LAV53e-86REM20_ARATH; B3 domain-containing protein REM20
TrEMBLA0A3P5ZVW20.0A0A3P5ZVW2_BRACM; Uncharacterized protein
TrEMBLM4DMF90.0M4DMF9_BRARP; Uncharacterized protein
STRINGBra017692.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G53310.11e-82B3 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]