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_009143617.1
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: 248aa    MW: 28736.8 Da    PI: 7.2612
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009143617.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3101.35.5e-3239144199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k ltpsdv+k++rlv+pk++ae++           e++  l +ede+g+ W+++++y+++s++yvltkGW+++vk+++L++gD+++F++++ +
  XP_009143617.1  39 FEKPLTPSDVGKLNRLVIPKQHAERYfplaaaaADAMEKGLLLCFEDEEGKPWRFRYSYWNSSQSYVLTKGWSRYVKEKQLDAGDVILFHRHRVD 133
                     99*****************************99555568889************************************************87779 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     +++++++++r+
  XP_009143617.1 134 GGRFFIGWRRR 144
                     *********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.6E-4033152IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.28E-3036144IPR015300DNA-binding pseudobarrel domain
CDDcd100171.28E-2738143No hitNo description
SMARTSM010199.5E-2439145IPR003340B3 DNA binding domain
PfamPF023621.4E-2939144IPR003340B3 DNA binding domain
PROSITE profilePS5086314.14239145IPR003340B3 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: 248 aa     Download sequence    Send to blast
MSINQYSSDF NYHSLMWQQQ QHRHHHHQND VAEEKEALFE KPLTPSDVGK LNRLVIPKQH  60
AERYFPLAAA AADAMEKGLL LCFEDEEGKP WRFRYSYWNS SQSYVLTKGW SRYVKEKQLD  120
AGDVILFHRH RVDGGRFFIG WRRRGNSSSS SDSYRHLQSN ASLQYYPHAG VQAVESQRGN  180
SKTLRLFGVN MECQLDSDLP DPSTPDGSTI CPTSHDQFHL YPQQHYPPPY YMDISFTGDV  240
HQTRSPQG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A1e-48341443113B3 domain-containing transcription factor NGA1
5os9_B1e-48341443113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009143617.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325750.0AC232575.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrS010A05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009143617.10.0PREDICTED: B3 domain-containing protein At2g36080-like
SwissprotQ8GYJ21e-144Y2608_ARATH; B3 domain-containing protein At2g36080
TrEMBLA0A3P5Z3J20.0A0A3P5Z3J2_BRACM; Uncharacterized protein
TrEMBLM4CM640.0M4CM64_BRARP; Uncharacterized protein
STRINGBra005301.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM122028100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G36080.11e-110B3 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. Tanaka M, et al.
    The Minimum Open Reading Frame, AUG-Stop, Induces Boron-Dependent Ribosome Stalling and mRNA Degradation.
    Plant Cell, 2016. 28(11): p. 2830-2849
    [PMID:27760805]