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 Carubv10023925m
Common NameCARUB_v10023925mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family B3
Protein Properties Length: 249aa    MW: 28806.7 Da    PI: 7.1967
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10023925mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3102.42.5e-3238143199
                      EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                      f+k ltpsdv+k++rlv+pk++ae++        +   e++  l +ede+g+ W+++++y+++s++yvltkGW+++vk+++L++gD+v+F++++
  Carubv10023925m  38 FEKPLTPSDVGKLNRLVIPKQHAERYfplaaaaaDA-VEKGLLLCFEDEEGKPWRFRYSYWNSSQSYVLTKGWSRYVKEKHLDAGDVVLFHRHR 130
                      99*****************************99644.46888*************************************************887 PP

                      SSEE..EEEEE-S CS
               B3  87 rsefelvvkvfrk 99 
                       ++++++++++r+
  Carubv10023925m 131 ADGGRFFIGWRRR 143
                      79999******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.9E-4132151IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.24E-3135143IPR015300DNA-binding pseudobarrel domain
CDDcd100178.55E-2837133No hitNo description
PfamPF023628.2E-3038143IPR003340B3 DNA binding domain
SMARTSM010197.1E-2438144IPR003340B3 DNA binding domain
PROSITE profilePS5086314.05738144IPR003340B3 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 249 aa     Download sequence    Send to blast
MSITQYSSDF HYHSLMWQQQ QHHHHHQNDV VEEKEALFEK PLTPSDVGKL NRLVIPKQHA  60
ERYFPLAAAA ADAVEKGLLL CFEDEEGKPW RFRYSYWNSS QSYVLTKGWS RYVKEKHLDA  120
GDVVLFHRHR ADGGRFFIGW RRRGDSSSSS DSYRHHQSNA SLQYHPHAGA QAVESPRANS  180
KTLRLFGVNM ECQLDSEWSE PSTPDGSNTC TTNHDQFHFY PHQQHYPPPY YMDISFTGDV  240
NRTRSPQG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A3e-49311431113B3 domain-containing transcription factor NGA1
5os9_B3e-49311431113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10023925m
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_006294872.10.0B3 domain-containing protein At2g36080
SwissprotQ8GYJ21e-156Y2608_ARATH; B3 domain-containing protein At2g36080
TrEMBLR0HR360.0R0HR36_9BRAS; Uncharacterized protein
STRINGCagra.0993s0119.1.p0.0(Capsella grandiflora)
STRINGXP_006294872.10.0(Capsella rubella)
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-129B3 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]