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_009141558.1
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: 245aa    MW: 28403.3 Da    PI: 6.4336
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009141558.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3102.13e-3237142199
                     EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                     f+k ltpsdv+k++rlv+pk++ae++        + + e++  l +ede+g+ W+++++y+++s++yvltkGW+++vk+++L++gD+v+F++++ 
  XP_009141558.1  37 FEKPLTPSDVGKLNRLVIPKQHAERYfplaaaavDAV-EKGLLLCFEDEEGKPWRFRYSYWNSSQSYVLTKGWSRYVKEKQLDAGDVVLFHRHRA 130
                     99*****************************997555.57789************************************************8877 PP

                     SEE..EEEEE-S CS
              B3  88 sefelvvkvfrk 99 
                     ++++++++++r+
  XP_009141558.1 131 DGGRFFIGWRRR 142
                     9999******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.8E-4131150IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.57E-3034142IPR015300DNA-binding pseudobarrel domain
CDDcd100178.84E-2836132No hitNo description
PfamPF023621.7E-2937142IPR003340B3 DNA binding domain
PROSITE profilePS5086314.07137143IPR003340B3 DNA binding domain
SMARTSM010199.9E-2437143IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0080167Biological Processresponse to karrikin
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 245 aa     Download sequence    Send to blast
MSINQYSSEF YYHSLMWQQQ QQHHHQNEVV EEKEALFEKP LTPSDVGKLN RLVIPKQHAE  60
RYFPLAAAAV DAVEKGLLLC FEDEEGKPWR FRYSYWNSSQ SYVLTKGWSR YVKEKQLDAG  120
DVVLFHRHRA DGGRFFIGWR RRGDSSSSSD SYRNLQSNSS LQYYPHAGAQ AVENQRGNSK  180
TLRLFGVNME CQIDSDWSEP STPDGFTTCP TNHDQFPIYP EHFPPPYYMD VSFTGDVHQT  240
SSQQG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A5e-49301421113B3 domain-containing transcription factor NGA1
5os9_B5e-49301421113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009141558.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1175870.0AK117587.1 Arabidopsis thaliana At2g36080 mRNA for putative RAV2-like DNA binding protein, complete cds, clone: RAFL17-23-G02.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009141558.10.0PREDICTED: B3 domain-containing protein At2g36080
SwissprotQ8GYJ21e-144Y2608_ARATH; B3 domain-containing protein At2g36080
TrEMBLM4DL810.0M4DL81_BRARP; Uncharacterized protein
STRINGBra017262.1-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-126B3 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]